Psyllid ID: psy10320

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260--
Protein Sequence
MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKSRSPRSRSKSGSPRKSKSKAKSVSRSPSPSKTRKRSRSRSDSRARKVS
Secondary Structure (PSIPRED)
ccccEEEEccccccccHHHHHHHHHcccccEEEEEEccEEEEEEccHHHHHHHHHHHccccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccHHHHHHHHHHcccEEEEEccccccccEEEEEccHHHHHHHHHHHccccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEEcccccHcHHHHHHHHHccccEEEEEccccEEEEEEcccccHHHHHHccccccccccEEEEEEccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccHHHHHHHHHHcccEEEEEEcccccccEEEEEccHHHHHHHHHHcccccccccEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHccccccccccccccccc
Coil and Loop (DISEMBL)
mvgtkvyigglpygvreRDLEKFVKGYGRIRDVILkngfgfvefedyrdadDAVYELNGKSLLGERVTVEIAKGidrsqergrrgygsyrappprrgwghdrddrygpptrsdhRLIVENLSSRVSWQDLKDFMRQVGEVCYAdahkrhrnegvvefessSDMKKALDKLDNAELNGRRirliedkprgggrgrsrssssrsrsksrsrsrssksrsprsrsksgsprkskskaksvsrspspsktrkrsrsrsdsrarkvs
Flexible Loop (DISEMBL)
mvgtkvyigglpygvrerDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELngksllgervtveiakgidrsqergrrgygsyrappprrgwghdrddrygpptrsdhrlivenlssrvsWQDLKDFMRQVGEVCYAdahkrhrnegvvefesssdmkKALDKldnaelngrrirliedkprgggrgrsrssssrsrsksrsrsrssksrsprsrsksgsprkskskaksvsrspspsktrkrsrsrsdsrarkvs
Low Complexity Region (SEG)
MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDkprgggrgrsrssssrsrsksrsrsrssksrsprsrsksgsprkskskaksvsrspspsktrkrsrsrsdsrarkvs
Disordered region (IsUnstruct)
***TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG*****************************************LIVENLSSRVSWQDLKDFMRQVGEVCYADAH********************************************************************************************************************
Disordered Region (DISOPRED)
*VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK********************PRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNG*************************************************************************************
Disordered Region (DISEMBL)
MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE***********KKALDKLDNAELNGRRIRLIEDKP***************************************************************************
Disordered Region (DISPRO)
**GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK**********************************PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK****************************************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKSRSPRSRSKSGSPRKSKSKAKSVSRSPSPSKTRKRSRSRSDSRARKVS
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	262	2.2.26 [Sep-21-2011]
P26686	376	Serine-arginine protein 5	no	N/A	0.706	0.492	0.664	2e-67
Q8VE97	489	Serine/arginine-rich spli	yes	N/A	0.660	0.353	0.670	4e-63
Q08170	494	Serine/arginine-rich spli	yes	N/A	0.660	0.350	0.654	2e-62
Q13247	344	Serine/arginine-rich spli	no	N/A	0.694	0.529	0.652	2e-58
Q3B7L6	345	Serine/arginine-rich spli	no	N/A	0.694	0.527	0.646	1e-57
Q09167	269	Serine/arginine-rich spli	no	N/A	0.679	0.661	0.586	8e-51
O35326	269	Serine/arginine-rich spli	no	N/A	0.679	0.661	0.586	8e-51
Q13243	272	Serine/arginine-rich spli	no	N/A	0.679	0.654	0.586	8e-51
Q23120	281	Probable splicing factor,	yes	N/A	0.690	0.644	0.456	4e-42
Q23121	312	Probable splicing factor,	no	N/A	0.690	0.580	0.450	2e-41

>sp|P26686|SRR55_DROME Serine-arginine protein 55 OS=Drosophila melanogaster GN=B52 PE=1 SV=4

 Score =  255 bits (652), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 127/191 (66%), Positives = 149/191 (78%), Gaps = 6/191 (3%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVG++VY+GGLPYGVRERDLE+F KGYGR RD+++KNG+GFVEFEDYRDADDAVYELNGK
Sbjct: 1   MVGSRVYVGGLPYGVRERDLERFFKGYGRTRDILIKNGYGFVEFEDYRDADDAVYELNGK 60

Query: 61  SLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRD------DRYGPPTRSDH 114
            LLGERV VE A+G  R   R R             G  ++++       RYGPP R+++
Sbjct: 61  ELLGERVVVEPARGTARGSNRDRYDDRYGGRRGGGGGRYNEKNKNSRSSSRYGPPLRTEY 120

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAE 174
           RLIVENLSSRVSWQDLKD+MRQ GEV YADAHK+ RNEGVVEF S SDMK A++KLD+ E
Sbjct: 121 RLIVENLSSRVSWQDLKDYMRQAGEVTYADAHKQRRNEGVVEFASLSDMKTAIEKLDDTE 180

Query: 175 LNGRRIRLIED 185
           LNGRRI L+ED
Sbjct: 181 LNGRRIHLVED 191

Essential for development. May have a critical role in splicing or in controlling alternative splice site use of at least some pre-mRNA in vivo. Not required for all splicing. May play a general role in the condensation or decondensation of chromatin.
Drosophila melanogaster (taxid: 7227)

>sp|Q8VE97|SRSF4_MOUSE Serine/arginine-rich splicing factor 4 OS=Mus musculus GN=Srsf4 PE=2 SV=1

 Score =  241 bits (615), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 124/185 (67%), Positives = 144/185 (77%), Gaps = 12/185 (6%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
           +VYIG L Y  RERD+E+F KGYG+I +V LKNG+GFVEF+D RDADDAVYELNGK L G
Sbjct: 3   RVYIGRLSYQARERDVERFFKGYGKILEVDLKNGYGFVEFDDLRDADDAVYELNGKDLCG 62

Query: 65  ERVTVEIAKGI--DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLS 122
           ERV VE A+G   D S   GR GYG YR    R G      D+YGPPTR+++RLIVENLS
Sbjct: 63  ERVIVEHARGPRRDGSYGSGRSGYG-YR----RSGR-----DKYGPPTRTEYRLIVENLS 112

Query: 123 SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
           SR SWQDLKD+MRQ GEV YADAHK  +NEGV+EF S SDMK+AL+KLD  E+NGR+IRL
Sbjct: 113 SRCSWQDLKDYMRQAGEVTYADAHKGRKNEGVIEFVSYSDMKRALEKLDGTEVNGRKIRL 172

Query: 183 IEDKP 187
           +EDKP
Sbjct: 173 VEDKP 177

Plays a role in alternative splice site selection during pre-mRNA splicing. Represses the splicing of MAPT/Tau exon 10.

Mus musculus (taxid: 10090)

>sp|Q08170|SRSF4_HUMAN Serine/arginine-rich splicing factor 4 OS=Homo sapiens GN=SRSF4 PE=1 SV=2

 Score =  239 bits (609), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 121/185 (65%), Positives = 144/185 (77%), Gaps = 12/185 (6%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
           +VYIG L Y  RERD+E+F KGYG+I +V LKNG+GFVEF+D RDADDAVYELNGK L G
Sbjct: 3   RVYIGRLSYQARERDVERFFKGYGKILEVDLKNGYGFVEFDDLRDADDAVYELNGKDLCG 62

Query: 65  ERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRD--DRYGPPTRSDHRLIVENLS 122
           ERV VE A+G  R        YGS R+     G+G+ R   D+YGPPTR+++RLIVENLS
Sbjct: 63  ERVIVEHARGPRRDG-----SYGSGRS-----GYGYRRSGRDKYGPPTRTEYRLIVENLS 112

Query: 123 SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
           SR SWQDLKD+MRQ GEV YADAHK  +NEGV+EF S SDMK+AL+KLD  E+NGR+IRL
Sbjct: 113 SRCSWQDLKDYMRQAGEVTYADAHKGRKNEGVIEFVSYSDMKRALEKLDGTEVNGRKIRL 172

Query: 183 IEDKP 187
           +EDKP
Sbjct: 173 VEDKP 177

Plays a role in alternative splice site selection during pre-mRNA splicing. Represses the splicing of MAPT/Tau exon 10.

Homo sapiens (taxid: 9606)

>sp|Q13247|SRSF6_HUMAN Serine/arginine-rich splicing factor 6 OS=Homo sapiens GN=SRSF6 PE=1 SV=2

 Score =  226 bits (575), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 120/184 (65%), Positives = 137/184 (74%), Gaps = 2/184 (1%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
           +VYIG L Y VRE+D+++F  GYGR+ +V LKNG+GFVEFED RDADDAVYELNGK L G
Sbjct: 3   RVYIGRLSYNVREKDIQRFFSGYGRLLEVDLKNGYGFVEFEDSRDADDAVYELNGKELCG 62

Query: 65  ERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSR 124
           ERV VE A+G  R  +R    YGS               D+YGPP R+++RLIVENLSSR
Sbjct: 63  ERVIVEHARGPRR--DRDGYSYGSRSGGGGYSSRRTSGRDKYGPPVRTEYRLIVENLSSR 120

Query: 125 VSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE 184
            SWQDLKDFMRQ GEV YADAHK   NEGV+EF S SDMK+ALDKLD  E+NGR IRLIE
Sbjct: 121 CSWQDLKDFMRQAGEVTYADAHKERTNEGVIEFRSYSDMKRALDKLDGTEINGRNIRLIE 180

Query: 185 DKPR 188
           DKPR
Sbjct: 181 DKPR 184

Plays a role in constitutive splicing and can modulate the selection of alternative splice sites. Represses the splicing of MAPT/Tau exon 10.

Homo sapiens (taxid: 9606)

>sp|Q3B7L6|SRSF6_BOVIN Serine/arginine-rich splicing factor 6 OS=Bos taurus GN=SRSF6 PE=2 SV=1

 Score =  223 bits (567), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 119/184 (64%), Positives = 135/184 (73%), Gaps = 2/184 (1%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
           +VYIG L Y VRE+D+++F  GYGR+  + LKNG+GFVEFED RDADDAVYELNGK L G
Sbjct: 3   RVYIGRLSYNVREKDIQRFFSGYGRLLGIDLKNGYGFVEFEDSRDADDAVYELNGKELCG 62

Query: 65  ERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSR 124
           ERV VE A+G  R  +R    YGS               D+YGPP R++ RLIVENLSSR
Sbjct: 63  ERVIVEHARGPRR--DRDGYSYGSRSGGGGYSSRRTSGRDKYGPPVRTEFRLIVENLSSR 120

Query: 125 VSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE 184
            SWQDLKDFMRQ GEV YADAHK   NEGV+EF S SDMK+ALDKLD  E+NGR IRLIE
Sbjct: 121 CSWQDLKDFMRQAGEVTYADAHKERTNEGVIEFRSYSDMKRALDKLDGTEINGRNIRLIE 180

Query: 185 DKPR 188
           DKPR
Sbjct: 181 DKPR 184

Plays a role in constitutive splicing and can modulate the selection of alternative splice sites. Represses the splicing of MAPT/Tau exon 10.

Bos taurus (taxid: 9913)

>sp|Q09167|SRSF5_RAT Serine/arginine-rich splicing factor 5 OS=Rattus norvegicus GN=Srsf5 PE=2 SV=1

 Score =  200 bits (509), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 108/184 (58%), Positives = 130/184 (70%), Gaps = 6/184 (3%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           M G +V+IG L    RE+D+E+F KGYGRIRD+ LK GFGFVEFED RDADDAVYEL+GK
Sbjct: 1   MSGCRVFIGRLNPAAREKDVERFFKGYGRIRDIDLKRGFGFVEFEDPRDADDAVYELDGK 60

Query: 61  SLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVEN 120
            L  ERVT+E A+   R      R    + +  PR       D R  PP R+++RLIVEN
Sbjct: 61  ELCSERVTIEHARARSRGGRGRGRYSDRFSSRRPRN------DRRNAPPVRTENRLIVEN 114

Query: 121 LSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRI 180
           LSSRVSWQDLKDFMRQ GEV +ADAH+   NEGVVEF S  D+K A++KL   E+NGR+I
Sbjct: 115 LSSRVSWQDLKDFMRQAGEVTFADAHRPKLNEGVVEFASYGDLKNAIEKLSGKEINGRKI 174

Query: 181 RLIE 184
           +LIE
Sbjct: 175 KLIE 178

May be required for progression through G1 and entry into S phase of cell growth. May play a regulatory role in pre-mRNA splicing. Autoregulates its own expression. Plays a role in constitutive splicing and can modulate the selection of alternative splice sites (By similarity). Could play an important role in development and differentiation in the spleen and thymus.

Rattus norvegicus (taxid: 10116)

>sp|O35326|SRSF5_MOUSE Serine/arginine-rich splicing factor 5 OS=Mus musculus GN=Srsf5 PE=1 SV=2

 Score =  200 bits (509), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 108/184 (58%), Positives = 130/184 (70%), Gaps = 6/184 (3%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           M G +V+IG L    RE+D+E+F KGYGRIRD+ LK GFGFVEFED RDADDAVYEL+GK
Sbjct: 1   MSGCRVFIGRLNPAAREKDVERFFKGYGRIRDIDLKRGFGFVEFEDPRDADDAVYELDGK 60

Query: 61  SLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVEN 120
            L  ERVT+E A+   R      R    + +  PR       D R  PP R+++RLIVEN
Sbjct: 61  ELCSERVTIEHARARSRGGRGRGRYSDRFSSRRPRN------DRRNAPPVRTENRLIVEN 114

Query: 121 LSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRI 180
           LSSRVSWQDLKDFMRQ GEV +ADAH+   NEGVVEF S  D+K A++KL   E+NGR+I
Sbjct: 115 LSSRVSWQDLKDFMRQAGEVTFADAHRPKLNEGVVEFASYGDLKNAIEKLSGKEINGRKI 174

Query: 181 RLIE 184
           +LIE
Sbjct: 175 KLIE 178

May be required for progression through G1 and entry into S phase of cell growth. May play a regulatory role in pre-mRNA splicing. Autoregulates its own expression. Plays a role in constitutive splicing and can modulate the selection of alternative splice sites.

Mus musculus (taxid: 10090)

>sp|Q13243|SRSF5_HUMAN Serine/arginine-rich splicing factor 5 OS=Homo sapiens GN=SRSF5 PE=1 SV=1

 Score =  200 bits (509), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 108/184 (58%), Positives = 130/184 (70%), Gaps = 6/184 (3%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           M G +V+IG L    RE+D+E+F KGYGRIRD+ LK GFGFVEFED RDADDAVYEL+GK
Sbjct: 1   MSGCRVFIGRLNPAAREKDVERFFKGYGRIRDIDLKRGFGFVEFEDPRDADDAVYELDGK 60

Query: 61  SLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVEN 120
            L  ERVT+E A+   R      R    + +  PR       D R  PP R+++RLIVEN
Sbjct: 61  ELCSERVTIEHARARSRGGRGRGRYSDRFSSRRPRN------DRRNAPPVRTENRLIVEN 114

Query: 121 LSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRI 180
           LSSRVSWQDLKDFMRQ GEV +ADAH+   NEGVVEF S  D+K A++KL   E+NGR+I
Sbjct: 115 LSSRVSWQDLKDFMRQAGEVTFADAHRPKLNEGVVEFASYGDLKNAIEKLSGKEINGRKI 174

Query: 181 RLIE 184
           +LIE
Sbjct: 175 KLIE 178

Plays a role in constitutive splicing and can modulate the selection of alternative splice sites.

Homo sapiens (taxid: 9606)

>sp|Q23120|RSP2_CAEEL Probable splicing factor, arginine/serine-rich 2 OS=Caenorhabditis elegans GN=rsp-2 PE=3 SV=1

 Score =  171 bits (434), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 84/184 (45%), Positives = 127/184 (69%), Gaps = 3/184 (1%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
            +VYIG LP    +RD+E F +GYG++ DVI+KNGFGFV+F+D RDADDAV++LNGK L 
Sbjct: 2   VRVYIGRLPNRASDRDVEHFFRGYGKLSDVIMKNGFGFVDFQDQRDADDAVHDLNGKELC 61

Query: 64  GERVTVEIA-KGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLS 122
           GERV +E   + +  ++ER   G+   R P  R+G      +RY  P  +  RL+++NLS
Sbjct: 62  GERVILEFPRRKVGYNEERSGSGFRG-REPTFRKGGERQFSNRYSRPCSTRFRLVIDNLS 120

Query: 123 SRVSWQDLKDFMRQVG-EVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
           +R SWQD+KD +R++G E  Y++AHKR+ N+ +V F S  D++ A++KL   +LNGR+++
Sbjct: 121 TRYSWQDIKDHIRKLGIEPTYSEAHKRNVNQAIVCFTSHDDLRDAMNKLQGEDLNGRKLK 180

Query: 182 LIED 185
             ++
Sbjct: 181 CTDE 184

Plays a functionally redundant role in spermatogenesis and growth rate control. Required for the development of somatic gonad structures and for progression from larval stage to adulthood.

Caenorhabditis elegans (taxid: 6239)

>sp|Q23121|RSP1_CAEEL Probable splicing factor, arginine/serine-rich 1 OS=Caenorhabditis elegans GN=rsp-1 PE=3 SV=1

 Score =  169 bits (427), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 95/211 (45%), Positives = 131/211 (62%), Gaps = 30/211 (14%)

Query: 2   VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKS 61
           +  ++YIG L   V E+D+E F +GYG+IRDV+LKNGFGFVEF+D RDA+DAV++LNGK 
Sbjct: 1   MAARIYIGRLTSRVSEKDIEHFFRGYGQIRDVLLKNGFGFVEFDDKRDAEDAVHDLNGKE 60

Query: 62  LLGERVTVEIAK----------------------GIDRSQERGRRGYGSYRAPPPRRGWG 99
           L GERV ++ +K                              GR  +  Y   PPR    
Sbjct: 61  LGGERVILDYSKPRGGGGDRGGFGGGGRGGARVSSYSGGGGGGRDRFDRYDRGPPR---- 116

Query: 100 HDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAHKRHRNEGVVEFE 158
             R+ RYG P  + HR++VENLSSR+SWQDLKD +R+ G E  YA+AHKR  NE ++ F 
Sbjct: 117 --RESRYGRPYSTRHRVVVENLSSRISWQDLKDQVRRQGVEPTYAEAHKRP-NEALLCFA 173

Query: 159 SSSDMKKALDKLDNAELNGRRIRLIEDKPRG 189
           + SD+K+ ++K D  +LNGR+I++I+D   G
Sbjct: 174 TPSDLKRCIEKCDGMDLNGRKIKMIDDSQAG 204

Plays a functionally redundant role in spermatogenesis and growth rate control.

Caenorhabditis elegans (taxid: 6239)

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	262
112982956	306	splicing factor arginine/serine-rich 6 [	0.687	0.588	0.718	1e-71
357621499	408	splicing factor arginine/serine-rich 6 [	0.656	0.421	0.668	9e-70
328786878	419	PREDICTED: serine/arginine-rich splicing	0.706	0.441	0.652	2e-68
307189409	387	Serine-arginine protein 55 [Camponotus f	0.706	0.478	0.652	2e-68
350408072	394	PREDICTED: serine/arginine-rich splicing	0.706	0.469	0.652	3e-68
350408075	418	PREDICTED: serine/arginine-rich splicing	0.706	0.442	0.652	3e-68
383848642	418	PREDICTED: serine/arginine-rich splicing	0.706	0.442	0.652	8e-68
270014159	424	hypothetical protein TcasGA2_TC012868 [T	0.645	0.398	0.666	2e-67
91091338	282	PREDICTED: similar to hnRNP protein [Tri	0.660	0.613	0.686	9e-67
195036928	360	GH18528 [Drosophila grimshawi] gi|193894	0.706	0.513	0.675	4e-66

>gi|112982956|ref|NP_001037676.1| splicing factor arginine/serine-rich 6 [Bombyx mori] gi|109706819|gb|ABG42996.1| splicing factor arginine/serine-rich 6 [Bombyx mori]

 Score =  275 bits (704), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 133/185 (71%), Positives = 158/185 (85%), Gaps = 5/185 (2%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVG++VY+GGLP+GVRERDLEKF KG+GRIRD+++KNG+GFVEFEDYRDADDAVYELNGK
Sbjct: 1   MVGSRVYVGGLPFGVRERDLEKFFKGFGRIRDILIKNGYGFVEFEDYRDADDAVYELNGK 60

Query: 61  SLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVEN 120
            LLGERV VE A+GIDRS +R RRG   Y     R G G  R + YGPPTR+++RLIVEN
Sbjct: 61  ELLGERVVVEPARGIDRSADRYRRGDRHYE----RSGGGRSRYE-YGPPTRTEYRLIVEN 115

Query: 121 LSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRI 180
           +SSR+SWQDLKD+MRQ GEV YADAHK+HRNEGVVEF + SDM+ A++KLD  ELNGRR+
Sbjct: 116 VSSRISWQDLKDYMRQAGEVTYADAHKQHRNEGVVEFATHSDMRAAIEKLDGTELNGRRV 175

Query: 181 RLIED 185
           RL+ED
Sbjct: 176 RLVED 180

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357621499|gb|EHJ73311.1| splicing factor arginine/serine-rich 6 [Danaus plexippus]

 Score =  269 bits (687), Expect = 9e-70,   Method: Compositional matrix adjust.
 Identities = 131/196 (66%), Positives = 155/196 (79%), Gaps = 24/196 (12%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVG++VY+GGLP+GVRERDLEKF KG+GRIRD+++KNG+GFVEFEDYRDADDAVYELNGK
Sbjct: 1   MVGSRVYVGGLPFGVRERDLEKFFKGFGRIRDILIKNGYGFVEFEDYRDADDAVYELNGK 60

Query: 61  SLLGERVTVEIAKGIDRSQER-----------GRRGYGSYRAPPPRRGWGHDRDDRYGPP 109
            LLGERV VE A+GIDRS +R           GR  Y  Y             + RYGPP
Sbjct: 61  ELLGERVVVEPARGIDRSADRYRRDRYYERDRGRSRYDDY-------------NYRYGPP 107

Query: 110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDK 169
           TR+++RLIVENLSSR+SWQDLKD+MRQ GEV YADAHK+HRNEGVVEF + SDM+ A++K
Sbjct: 108 TRTEYRLIVENLSSRISWQDLKDYMRQAGEVTYADAHKQHRNEGVVEFATHSDMRAAIEK 167

Query: 170 LDNAELNGRRIRLIED 185
           LD  ELNGRR+RL+ED
Sbjct: 168 LDGTELNGRRVRLVED 183

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328786878|ref|XP_391860.4| PREDICTED: serine/arginine-rich splicing factor 4 [Apis mellifera]

 Score =  265 bits (676), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 135/207 (65%), Positives = 156/207 (75%), Gaps = 22/207 (10%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVGT+VY+GGLPYG RERDLE+F +GYGR RDV++KNG+GFVEF+DYRDADDAVYELNGK
Sbjct: 54  MVGTRVYVGGLPYGTRERDLERFFRGYGRFRDVLIKNGYGFVEFDDYRDADDAVYELNGK 113

Query: 61  SLLGERVTVEIAKGIDRSQERGRRG-----YGSYRAPPPRRGWGHDRDD----------- 104
            LLGER+TVE A+G  R  ++ R G     YG  R    R    HDRD            
Sbjct: 114 ELLGERITVERARGTPRGSDQWRYGDSRGGYGDSRRSA-RDDMRHDRDSVNRNTRTASSY 172

Query: 105 -----RYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFES 159
                RYGPPTR+++RL VENLSSRVSWQDLKD+MRQ GEV YADAHK+ RNEGVVEF +
Sbjct: 173 KQSLPRYGPPTRTEYRLTVENLSSRVSWQDLKDYMRQAGEVTYADAHKQRRNEGVVEFAT 232

Query: 160 SSDMKKALDKLDNAELNGRRIRLIEDK 186
            SD+K A+DKLD+ ELNGRRIRLIEDK
Sbjct: 233 YSDLKNAIDKLDDTELNGRRIRLIEDK 259

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307189409|gb|EFN73819.1| Serine-arginine protein 55 [Camponotus floridanus]

 Score =  265 bits (676), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 135/207 (65%), Positives = 156/207 (75%), Gaps = 22/207 (10%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVGT+VY+GGLPYG RERDLE+F +GYGR RDV++KNG+GFVEF+DYRDADDAVYELNGK
Sbjct: 54  MVGTRVYVGGLPYGTRERDLERFFRGYGRFRDVLIKNGYGFVEFDDYRDADDAVYELNGK 113

Query: 61  SLLGERVTVEIAKGIDRSQERGRRG-----YGSYRAPPPRRGWGHDRDD----------- 104
            LLGER+TVE A+G  R  ++ R G     YG  R    R    HDRD            
Sbjct: 114 ELLGERITVERARGTPRGSDQWRYGDSRGGYGDSRRSA-RDDMRHDRDSVNRNTRTASSY 172

Query: 105 -----RYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFES 159
                RYGPPTR+++RL VENLSSRVSWQDLKD+MRQ GEV YADAHK+ RNEGVVEF +
Sbjct: 173 KQSLPRYGPPTRTEYRLTVENLSSRVSWQDLKDYMRQAGEVTYADAHKQRRNEGVVEFAT 232

Query: 160 SSDMKKALDKLDNAELNGRRIRLIEDK 186
            SD+K A+DKLD+ ELNGRRIRLIEDK
Sbjct: 233 YSDLKNAIDKLDDTELNGRRIRLIEDK 259

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350408072|ref|XP_003488292.1| PREDICTED: serine/arginine-rich splicing factor 4-like isoform 1 [Bombus impatiens]

 Score =  264 bits (674), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 135/207 (65%), Positives = 156/207 (75%), Gaps = 22/207 (10%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVGT+VY+GGLPYG RERDLE+F +GYGR RDV++KNG+GFVEF+DYRDADDAVYELNGK
Sbjct: 54  MVGTRVYVGGLPYGTRERDLERFFRGYGRFRDVLIKNGYGFVEFDDYRDADDAVYELNGK 113

Query: 61  SLLGERVTVEIAKGIDRSQERGRRG-----YGSYRAPPPRRGWGHDRDD----------- 104
            LLGER+TVE A+G  R  ++ R G     YG  R    R    HDRD            
Sbjct: 114 ELLGERITVERARGTPRGSDQWRYGDSRGGYGDSRRSA-RDDMRHDRDSVNRNTRTASSY 172

Query: 105 -----RYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFES 159
                RYGPPTR+++RL VENLSSRVSWQDLKD+MRQ GEV YADAHK+ RNEGVVEF +
Sbjct: 173 KQSLPRYGPPTRTEYRLTVENLSSRVSWQDLKDYMRQAGEVTYADAHKQRRNEGVVEFAT 232

Query: 160 SSDMKKALDKLDNAELNGRRIRLIEDK 186
            SD+K A+DKLD+ ELNGRRIRLIEDK
Sbjct: 233 YSDLKNAIDKLDDTELNGRRIRLIEDK 259

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350408075|ref|XP_003488293.1| PREDICTED: serine/arginine-rich splicing factor 4-like isoform 2 [Bombus impatiens]

 Score =  264 bits (674), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 135/207 (65%), Positives = 156/207 (75%), Gaps = 22/207 (10%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVGT+VY+GGLPYG RERDLE+F +GYGR RDV++KNG+GFVEF+DYRDADDAVYELNGK
Sbjct: 54  MVGTRVYVGGLPYGTRERDLERFFRGYGRFRDVLIKNGYGFVEFDDYRDADDAVYELNGK 113

Query: 61  SLLGERVTVEIAKGIDRSQERGRRG-----YGSYRAPPPRRGWGHDRDD----------- 104
            LLGER+TVE A+G  R  ++ R G     YG  R    R    HDRD            
Sbjct: 114 ELLGERITVERARGTPRGSDQWRYGDSRGGYGDSRRSA-RDDMRHDRDSVNRNTRTASSY 172

Query: 105 -----RYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFES 159
                RYGPPTR+++RL VENLSSRVSWQDLKD+MRQ GEV YADAHK+ RNEGVVEF +
Sbjct: 173 KQSLPRYGPPTRTEYRLTVENLSSRVSWQDLKDYMRQAGEVTYADAHKQRRNEGVVEFAT 232

Query: 160 SSDMKKALDKLDNAELNGRRIRLIEDK 186
            SD+K A+DKLD+ ELNGRRIRLIEDK
Sbjct: 233 YSDLKNAIDKLDDTELNGRRIRLIEDK 259

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383848642|ref|XP_003699957.1| PREDICTED: serine/arginine-rich splicing factor 4-like [Megachile rotundata]

 Score =  263 bits (671), Expect = 8e-68,   Method: Compositional matrix adjust.
 Identities = 135/207 (65%), Positives = 156/207 (75%), Gaps = 22/207 (10%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVGT+VY+GGLPYG RERDLE+F +GYGR RDV++KNG+GFVEF+DYRDADDAVYELNGK
Sbjct: 54  MVGTRVYVGGLPYGTRERDLERFFRGYGRFRDVLIKNGYGFVEFDDYRDADDAVYELNGK 113

Query: 61  SLLGERVTVEIAKGIDRSQERGRRG-----YGSYRAPPPRRGWGHDRDD----------- 104
            LLGER+TVE A+G  R  ++ R G     YG  R    R    HDRD            
Sbjct: 114 ELLGERITVERARGTPRGSDQWRYGDSRGGYGDSRRSA-RDDMRHDRDSVNRNTRTASSY 172

Query: 105 -----RYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFES 159
                RYGPPTR+++RLIVENLSSRVSWQDLKD+MR  GEV YADAHK+ RNEGVVEF +
Sbjct: 173 KQSLPRYGPPTRTEYRLIVENLSSRVSWQDLKDYMRHAGEVTYADAHKQRRNEGVVEFAT 232

Query: 160 SSDMKKALDKLDNAELNGRRIRLIEDK 186
            SD+K A+DKLD+ ELNGRRIRLIEDK
Sbjct: 233 YSDLKNAIDKLDDTELNGRRIRLIEDK 259

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270014159|gb|EFA10607.1| hypothetical protein TcasGA2_TC012868 [Tribolium castaneum]

 Score =  261 bits (667), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 126/189 (66%), Positives = 149/189 (78%), Gaps = 20/189 (10%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVG++VY+GGLPYG  ERDLE+F +GYGR+RDV++KNG+GFVEF+D+RDADDAVYELNGK
Sbjct: 1   MVGSRVYVGGLPYGTTERDLERFFRGYGRMRDVLIKNGYGFVEFDDHRDADDAVYELNGK 60

Query: 61  SLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWG----HDRDDRYGPPTRSDHRL 116
            LLGERVTVE A+G                 P  R  W     H   +RYGPPTR+++RL
Sbjct: 61  KLLGERVTVERARG----------------TPRGRDQWSSRSDHRSHERYGPPTRTNYRL 104

Query: 117 IVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELN 176
           IVENLSSR+SWQDLKD+MRQ GEV YADAHK+HRNEGVVEF S SD+K A++KLD+ ELN
Sbjct: 105 IVENLSSRISWQDLKDYMRQAGEVTYADAHKQHRNEGVVEFASYSDLKNAIEKLDDTELN 164

Query: 177 GRRIRLIED 185
           GRRIRLIED
Sbjct: 165 GRRIRLIED 173

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91091338|ref|XP_966697.1| PREDICTED: similar to hnRNP protein [Tribolium castaneum]

 Score =  259 bits (661), Expect = 9e-67,   Method: Compositional matrix adjust.
 Identities = 127/185 (68%), Positives = 151/185 (81%), Gaps = 12/185 (6%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVG++VY+GGLPYG  ERDLE+F +GYGR+RDV++KNG+GFVEF+D+RDADDAVYELNGK
Sbjct: 1   MVGSRVYVGGLPYGTTERDLERFFRGYGRMRDVLIKNGYGFVEFDDHRDADDAVYELNGK 60

Query: 61  SLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVEN 120
            LLGERVTVE A+G      RGR  + S           H   +RYGPPTR+++RLIVEN
Sbjct: 61  KLLGERVTVERARGT----PRGRDQWSSRS--------DHRSHERYGPPTRTNYRLIVEN 108

Query: 121 LSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRI 180
           LSSR+SWQDLKD+MRQ GEV YADAHK+HRNEGVVEF S SD+K A++KLD+ ELNGRRI
Sbjct: 109 LSSRISWQDLKDYMRQAGEVTYADAHKQHRNEGVVEFASYSDLKNAIEKLDDTELNGRRI 168

Query: 181 RLIED 185
           RLIED
Sbjct: 169 RLIED 173

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195036928|ref|XP_001989920.1| GH18528 [Drosophila grimshawi] gi|193894116|gb|EDV92982.1| GH18528 [Drosophila grimshawi]

 Score =  257 bits (656), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 125/185 (67%), Positives = 145/185 (78%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           MVG++VY+GGLPYGVRERDLE+F KGYGR RD+++KNG+GFVEFEDYRDADDAVYELNGK
Sbjct: 1   MVGSRVYVGGLPYGVRERDLERFFKGYGRTRDILIKNGYGFVEFEDYRDADDAVYELNGK 60

Query: 61  SLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVEN 120
            LLGERV VE A+G  R   R R              +      RYGPP R+++RLIVEN
Sbjct: 61  ELLGERVVVEPARGTARGSNRDRYEDRYGGRRGGGGRYNDKSSSRYGPPLRTEYRLIVEN 120

Query: 121 LSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRI 180
           LSSRVSWQDLKD+MRQ GEV YADAHK+ RNEGVVEF S SDMK A++KLD+ ELNGRR+
Sbjct: 121 LSSRVSWQDLKDYMRQAGEVTYADAHKQRRNEGVVEFASLSDMKTAIEKLDDTELNGRRV 180

Query: 181 RLIED 185
            L+ED
Sbjct: 181 HLVED 185

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	262
FB|FBgn0004587	376	B52 "B52" [Drosophila melanoga	0.698	0.486	0.683	4.1e-65
UNIPROTKB|A7MB38	493	SFRS4 "SFRS4 protein" [Bos tau	0.652	0.346	0.666	1.1e-57
UNIPROTKB|Q08170	494	SRSF4 "Serine/arginine-rich sp	0.652	0.346	0.666	1.1e-57
UNIPROTKB|Q06A99	491	SRSF4 "SFRS4" [Sus scrofa (tax	0.652	0.348	0.666	1.1e-57
MGI|MGI:1890577	489	Srsf4 "serine/arginine-rich sp	0.652	0.349	0.666	1.1e-57
RGD|1561347	488	Srsf4 "serine/arginine-rich sp	0.652	0.350	0.666	1.1e-57
UNIPROTKB|Q13247	344	SRSF6 "Serine/arginine-rich sp	0.671	0.511	0.652	2.8e-57
UNIPROTKB|F1MXY9	345	SRSF6 "Serine/arginine-rich-sp	0.671	0.510	0.646	7.5e-57
UNIPROTKB|F1PTE0	344	SRSF6 "Uncharacterized protein	0.671	0.511	0.646	7.5e-57
UNIPROTKB|Q06AA0	345	SRSF6 "Uncharacterized protein	0.671	0.510	0.646	7.5e-57

FB|FBgn0004587 B52 "B52" [Drosophila melanogaster (taxid:7227)]

 Score = 663 (238.4 bits), Expect = 4.1e-65, P = 4.1e-65
 Identities = 132/193 (68%), Positives = 152/193 (78%)

Query:     1 MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
             MVG++VY+GGLPYGVRERDLE+F KGYGR RD+++KNG+GFVEFEDYRDADDAVYELNGK
Sbjct:     1 MVGSRVYVGGLPYGVRERDLERFFKGYGRTRDILIKNGYGFVEFEDYRDADDAVYELNGK 60

Query:    61 SLLGERVTVEIAKGI------DRSQER--GRRGYGSYRAPPPRRGWGHDRDDRYGPPTRS 112
              LLGERV VE A+G       DR  +R  GRRG G  R     +        RYGPP R+
Sbjct:    61 ELLGERVVVEPARGTARGSNRDRYDDRYGGRRGGGGGRYNEKNKN--SRSSSRYGPPLRT 118

Query:   113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDN 172
             ++RLIVENLSSRVSWQDLKD+MRQ GEV YADAHK+ RNEGVVEF S SDMK A++KLD+
Sbjct:   119 EYRLIVENLSSRVSWQDLKDYMRQAGEVTYADAHKQRRNEGVVEFASLSDMKTAIEKLDD 178

Query:   173 AELNGRRIRLIED 185
              ELNGRRI L+ED
Sbjct:   179 TELNGRRIHLVED 191

GO:0035327 "transcriptionally active chromatin" evidence=IDA

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

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

GO:0005634 "nucleus" evidence=IC;IDA;NAS

GO:0006376 "mRNA splice site selection" evidence=ISS

GO:0035062 "omega speckle" evidence=IDA

GO:0016607 "nuclear speck" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000381 "regulation of alternative mRNA splicing, via spliceosome" evidence=IMP

GO:0048024 "regulation of mRNA splicing, via spliceosome" evidence=IMP

GO:0007067 "mitosis" evidence=IMP

GO:0071011 "precatalytic spliceosome" evidence=IDA

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

GO:0005700 "polytene chromosome" evidence=IDA

UNIPROTKB|A7MB38 SFRS4 "SFRS4 protein" [Bos taurus (taxid:9913)]

 Score = 593 (213.8 bits), Expect = 1.1e-57, P = 1.1e-57
 Identities = 122/183 (66%), Positives = 142/183 (77%)

Query:     5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
             +VYIG L Y  RERD+E+F KGYG+I +V LKNG+GFVEF+D RDADDAVYELNGK L G
Sbjct:     3 RVYIGRLSYQARERDVERFFKGYGKILEVDLKNGYGFVEFDDLRDADDAVYELNGKDLCG 62

Query:    65 ERVTVEIAKGI--DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLS 122
             ERV VE A+G   D S   GR GYG YR    R G      D+YGPPTR+++RLIVENLS
Sbjct:    63 ERVIVEHARGPRRDGSYGSGRSGYG-YR----RSG-----RDKYGPPTRTEYRLIVENLS 112

Query:   123 SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
             SR SWQDLKD+MRQ GEV YADAHK  +NEGV+EF S SDMK+AL+KLD  E+NGR+IRL
Sbjct:   113 SRCSWQDLKDYMRQAGEVTYADAHKGRKNEGVIEFVSYSDMKRALEKLDGTEVNGRKIRL 172

Query:   183 IED 185
             +ED
Sbjct:   173 VED 175

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q08170 SRSF4 "Serine/arginine-rich splicing factor 4" [Homo sapiens (taxid:9606)]

 Score = 593 (213.8 bits), Expect = 1.1e-57, P = 1.1e-57
 Identities = 122/183 (66%), Positives = 142/183 (77%)

Query:     5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
             +VYIG L Y  RERD+E+F KGYG+I +V LKNG+GFVEF+D RDADDAVYELNGK L G
Sbjct:     3 RVYIGRLSYQARERDVERFFKGYGKILEVDLKNGYGFVEFDDLRDADDAVYELNGKDLCG 62

Query:    65 ERVTVEIAKGI--DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLS 122
             ERV VE A+G   D S   GR GYG YR    R G      D+YGPPTR+++RLIVENLS
Sbjct:    63 ERVIVEHARGPRRDGSYGSGRSGYG-YR----RSG-----RDKYGPPTRTEYRLIVENLS 112

Query:   123 SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
             SR SWQDLKD+MRQ GEV YADAHK  +NEGV+EF S SDMK+AL+KLD  E+NGR+IRL
Sbjct:   113 SRCSWQDLKDYMRQAGEVTYADAHKGRKNEGVIEFVSYSDMKRALEKLDGTEVNGRKIRL 172

Query:   183 IED 185
             +ED
Sbjct:   173 VED 175

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IDA

GO:0005634 "nucleus" evidence=TAS

GO:0006397 "mRNA processing" evidence=TAS

GO:0000375 "RNA splicing, via transesterification reactions" evidence=TAS

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

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=TAS

GO:0006369 "termination of RNA polymerase II transcription" evidence=TAS

GO:0006406 "mRNA export from nucleus" evidence=TAS

GO:0008380 "RNA splicing" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0031124 "mRNA 3'-end processing" evidence=TAS

UNIPROTKB|Q06A99 SRSF4 "SFRS4" [Sus scrofa (taxid:9823)]

 Score = 593 (213.8 bits), Expect = 1.1e-57, P = 1.1e-57
 Identities = 122/183 (66%), Positives = 142/183 (77%)

Query:     5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
             +VYIG L Y  RERD+E+F KGYG+I +V LKNG+GFVEF+D RDADDAVYELNGK L G
Sbjct:     3 RVYIGRLSYQARERDVERFFKGYGKILEVDLKNGYGFVEFDDLRDADDAVYELNGKDLCG 62

Query:    65 ERVTVEIAKGI--DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLS 122
             ERV VE A+G   D S   GR GYG YR    R G      D+YGPPTR+++RLIVENLS
Sbjct:    63 ERVIVEHARGPRRDGSYGSGRSGYG-YR----RSG-----RDKYGPPTRTEYRLIVENLS 112

Query:   123 SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
             SR SWQDLKD+MRQ GEV YADAHK  +NEGV+EF S SDMK+AL+KLD  E+NGR+IRL
Sbjct:   113 SRCSWQDLKDYMRQAGEVTYADAHKGRKNEGVIEFVSYSDMKRALEKLDGTEVNGRKIRL 172

Query:   183 IED 185
             +ED
Sbjct:   173 VED 175

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

MGI|MGI:1890577 Srsf4 "serine/arginine-rich splicing factor 4" [Mus musculus (taxid:10090)]

 Score = 593 (213.8 bits), Expect = 1.1e-57, P = 1.1e-57
 Identities = 122/183 (66%), Positives = 142/183 (77%)

Query:     5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
             +VYIG L Y  RERD+E+F KGYG+I +V LKNG+GFVEF+D RDADDAVYELNGK L G
Sbjct:     3 RVYIGRLSYQARERDVERFFKGYGKILEVDLKNGYGFVEFDDLRDADDAVYELNGKDLCG 62

Query:    65 ERVTVEIAKGI--DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLS 122
             ERV VE A+G   D S   GR GYG YR    R G      D+YGPPTR+++RLIVENLS
Sbjct:    63 ERVIVEHARGPRRDGSYGSGRSGYG-YR----RSG-----RDKYGPPTRTEYRLIVENLS 112

Query:   123 SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
             SR SWQDLKD+MRQ GEV YADAHK  +NEGV+EF S SDMK+AL+KLD  E+NGR+IRL
Sbjct:   113 SRCSWQDLKDYMRQAGEVTYADAHKGRKNEGVIEFVSYSDMKRALEKLDGTEVNGRKIRL 172

Query:   183 IED 185
             +ED
Sbjct:   173 VED 175

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=ISO

RGD|1561347 Srsf4 "serine/arginine-rich splicing factor 4" [Rattus norvegicus (taxid:10116)]

 Score = 593 (213.8 bits), Expect = 1.1e-57, P = 1.1e-57
 Identities = 122/183 (66%), Positives = 142/183 (77%)

Query:     5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
             +VYIG L Y  RERD+E+F KGYG+I +V LKNG+GFVEF+D RDADDAVYELNGK L G
Sbjct:     3 RVYIGRLSYQARERDVERFFKGYGKILEVDLKNGYGFVEFDDLRDADDAVYELNGKDLCG 62

Query:    65 ERVTVEIAKGI--DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLS 122
             ERV VE A+G   D S   GR GYG YR    R G      D+YGPPTR+++RLIVENLS
Sbjct:    63 ERVIVEHARGPRRDGSYGSGRSGYG-YR----RSG-----RDKYGPPTRTEYRLIVENLS 112

Query:   123 SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
             SR SWQDLKD+MRQ GEV YADAHK  +NEGV+EF S SDMK+AL+KLD  E+NGR+IRL
Sbjct:   113 SRCSWQDLKDYMRQAGEVTYADAHKGRKNEGVIEFVSYSDMKRALEKLDGTEVNGRKIRL 172

Query:   183 IED 185
             +ED
Sbjct:   173 VED 175

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IEA;ISO

UNIPROTKB|Q13247 SRSF6 "Serine/arginine-rich splicing factor 6" [Homo sapiens (taxid:9606)]

 Score = 589 (212.4 bits), Expect = 2.8e-57, P = 2.8e-57
 Identities = 120/184 (65%), Positives = 138/184 (75%)

Query:     5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
             +VYIG L Y VRE+D+++F  GYGR+ +V LKNG+GFVEFED RDADDAVYELNGK L G
Sbjct:     3 RVYIGRLSYNVREKDIQRFFSGYGRLLEVDLKNGYGFVEFEDSRDADDAVYELNGKELCG 62

Query:    65 ERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRD---DRYGPPTRSDHRLIVENL 121
             ERV VE A+G      R R GY SY +     G+   R    D+YGPP R+++RLIVENL
Sbjct:    63 ERVIVEHARG----PRRDRDGY-SYGSRSGGGGYSSRRTSGRDKYGPPVRTEYRLIVENL 117

Query:   122 SSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
             SSR SWQDLKDFMRQ GEV YADAHK   NEGV+EF S SDMK+ALDKLD  E+NGR IR
Sbjct:   118 SSRCSWQDLKDFMRQAGEVTYADAHKERTNEGVIEFRSYSDMKRALDKLDGTEINGRNIR 177

Query:   182 LIED 185
             LIED
Sbjct:   178 LIED 181

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IDA

GO:0006376 "mRNA splice site selection" evidence=TAS

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

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=TAS

GO:0006369 "termination of RNA polymerase II transcription" evidence=TAS

GO:0006406 "mRNA export from nucleus" evidence=TAS

GO:0008380 "RNA splicing" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0031124 "mRNA 3'-end processing" evidence=TAS

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

UNIPROTKB|F1MXY9 SRSF6 "Serine/arginine-rich-splicing factor 6" [Bos taurus (taxid:9913)]

 Score = 585 (211.0 bits), Expect = 7.5e-57, P = 7.5e-57
 Identities = 119/184 (64%), Positives = 137/184 (74%)

Query:     5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
             +VYIG L Y VRE+D+++F  GYGR+ ++ LKNG+GFVEFED RDADDAVYELNGK L G
Sbjct:     3 RVYIGRLSYNVREKDIQRFFSGYGRLLEIDLKNGYGFVEFEDSRDADDAVYELNGKELCG 62

Query:    65 ERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRD---DRYGPPTRSDHRLIVENL 121
             ERV VE A+G      R R GY SY +     G+   R    D+YGPP R++ RLIVENL
Sbjct:    63 ERVIVEHARG----PRRDRDGY-SYGSRSGGGGYSSRRTSGRDKYGPPVRTEFRLIVENL 117

Query:   122 SSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
             SSR SWQDLKDFMRQ GEV YADAHK   NEGV+EF S SDMK+ALDKLD  E+NGR IR
Sbjct:   118 SSRCSWQDLKDFMRQAGEVTYADAHKERTNEGVIEFRSYSDMKRALDKLDGTEINGRNIR 177

Query:   182 LIED 185
             LIED
Sbjct:   178 LIED 181

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1PTE0 SRSF6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 585 (211.0 bits), Expect = 7.5e-57, P = 7.5e-57
 Identities = 119/184 (64%), Positives = 137/184 (74%)

Query:     5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
             +VYIG L Y VRE+D+++F  GYGR+ ++ LKNG+GFVEFED RDADDAVYELNGK L G
Sbjct:     3 RVYIGRLSYNVREKDIQRFFSGYGRLLEIDLKNGYGFVEFEDSRDADDAVYELNGKELCG 62

Query:    65 ERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRD---DRYGPPTRSDHRLIVENL 121
             ERV VE A+G      R R GY SY +     G+   R    D+YGPP R++ RLIVENL
Sbjct:    63 ERVIVEHARG----PRRDRDGY-SYGSRSGGGGYSSRRTSGRDKYGPPVRTEFRLIVENL 117

Query:   122 SSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
             SSR SWQDLKDFMRQ GEV YADAHK   NEGV+EF S SDMK+ALDKLD  E+NGR IR
Sbjct:   118 SSRCSWQDLKDFMRQAGEVTYADAHKERTNEGVIEFRSYSDMKRALDKLDGTEINGRNIR 177

Query:   182 LIED 185
             LIED
Sbjct:   178 LIED 181

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q06AA0 SRSF6 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 585 (211.0 bits), Expect = 7.5e-57, P = 7.5e-57
 Identities = 119/184 (64%), Positives = 137/184 (74%)

Query:     5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
             +VYIG L Y VRE+D+++F  GYGR+ ++ LKNG+GFVEFED RDADDAVYELNGK L G
Sbjct:     3 RVYIGRLSYNVREKDIQRFFSGYGRLLEIDLKNGYGFVEFEDSRDADDAVYELNGKELCG 62

Query:    65 ERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRD---DRYGPPTRSDHRLIVENL 121
             ERV VE A+G      R R GY SY +     G+   R    D+YGPP R++ RLIVENL
Sbjct:    63 ERVIVEHARG----PRRDRDGY-SYGSRSGGGGYSSRRTSGRDKYGPPVRTEFRLIVENL 117

Query:   122 SSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
             SSR SWQDLKDFMRQ GEV YADAHK   NEGV+EF S SDMK+ALDKLD  E+NGR IR
Sbjct:   118 SSRCSWQDLKDFMRQAGEVTYADAHKERTNEGVIEFRSYSDMKRALDKLDGTEINGRNIR 177

Query:   182 LIED 185
             LIED
Sbjct:   178 LIED 181

GO:0048025 "negative regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q08170	SRSF4_HUMAN	No assigned EC number	0.6540	0.6603	0.3502	yes	N/A
Q23120	RSP2_CAEEL	No assigned EC number	0.4565	0.6908	0.6441	yes	N/A
Q8VE97	SRSF4_MOUSE	No assigned EC number	0.6702	0.6603	0.3537	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	262
cd12600	72	cd12600, RRM2_SRSF4_like, RNA recognition motif 2	2e-40
cd12337	70	cd12337, RRM1_SRSF4_like, RNA recognition motif 1	1e-35
cd12766	73	cd12766, RRM2_SRSF6, RNA recognition motif 2 found	5e-30
cd12339	71	cd12339, RRM2_SRSF1_4_like, RNA recognition motif	1e-28
cd12764	72	cd12764, RRM2_SRSF4, RNA recognition motif 2 in ve	3e-28
cd12765	75	cd12765, RRM2_SRSF5, RNA recognition motif 2 in ve	4e-28
cd12596	70	cd12596, RRM1_SRSF6, RNA recognition motif 1 in ve	3e-26
cd12594	74	cd12594, RRM1_SRSF4, RNA recognition motif 1 in ve	2e-22
cd12595	70	cd12595, RRM1_SRSF5, RNA recognition motif 1 in ve	8e-22
cd12373	73	cd12373, RRM_SRSF3_like, RNA recognition motif in	3e-21
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	2e-17
smart00360	73	smart00360, RRM, RNA recognition motif	4e-17
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	1e-16
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	2e-16
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	6e-16
cd12338	72	cd12338, RRM1_SRSF1_like, RNA recognition motif 1	1e-15
smart00360	73	smart00360, RRM, RNA recognition motif	2e-14
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	1e-13
cd12601	74	cd12601, RRM2_SRSF1_like, RNA recognition motif 2	2e-13
cd12602	76	cd12602, RRM2_SF2_plant_like, RNA recognition moti	4e-13
cd12598	72	cd12598, RRM1_SRSF9, RNA recognition motif 1 in ve	5e-13
cd12387	72	cd12387, RRM3_hnRNPM_like, RNA recognition motif 3	5e-13
cd12599	72	cd12599, RRM1_SF2_plant_like, RNA recognition moti	1e-12
cd12233	70	cd12233, RRM_Srp1p_AtRSp31_like, RNA recognition m	6e-12
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	6e-12
cd12597	73	cd12597, RRM1_SRSF1, RNA recognition motif 1 in se	7e-12
cd12646	77	cd12646, RRM_SRSF7, RNA recognition motif in verte	1e-11
cd12385	76	cd12385, RRM1_hnRNPM_like, RNA recognition motif 1	1e-11
cd12645	81	cd12645, RRM_SRSF3, RNA recognition motif in verte	1e-11
cd12768	76	cd12768, RRM2_SRSF9, RNA recognition motif 2 in ve	2e-11
cd12343	66	cd12343, RRM1_2_CoAA_like, RNA recognition motif 1	2e-11
cd12312	84	cd12312, RRM_SRSF10_SRSF12, RNA recognition motif	6e-11
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	1e-10
cd12354	73	cd12354, RRM3_TIA1_like, RNA recognition motif 2 i	3e-10
cd12657	76	cd12657, RRM1_hnRNPM, RNA recognition motif 1 in v	5e-10
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	6e-10
cd12767	76	cd12767, RRM2_SRSF1, RNA recognition motif 2 in se	7e-10
cd12347	73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	3e-09
cd12658	76	cd12658, RRM1_MYEF2, RNA recognition motif 1 in ve	3e-09
cd12234	72	cd12234, RRM1_AtRSp31_like, RNA recognition motif	6e-09
cd12449	80	cd12449, RRM_CIRBP_RBM3, RNA recognition motif in	7e-09
cd12392	81	cd12392, RRM2_SART3, RNA recognition motif 2 in sq	8e-09
cd12341	68	cd12341, RRM_hnRNPC_like, RNA recognition motif in	1e-08
cd12340	67	cd12340, RBD_RRM1_NPL3, RNA recognition motif 1 in	2e-08
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	2e-08
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	4e-08
cd12407	76	cd12407, RRM_FOX1_like, RNA recognition motif in v	4e-08
cd12355	80	cd12355, RRM_RBM18, RNA recognition motif in eukar	5e-08
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	5e-08
cd12411	89	cd12411, RRM_ist3_like, RNA recognition motif in i	7e-08
cd12414	76	cd12414, RRM2_RBM28_like, RNA recognition motif 2	7e-08
cd12231	77	cd12231, RRM2_U2AF65, RNA recognition motif 2 foun	1e-07
cd12342	71	cd12342, RRM_Nab3p, RNA recognition motif in yeast	1e-07
cd12606	67	cd12606, RRM1_RBM4, RNA recognition motif 1 in ver	1e-07
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	2e-07
cd12327	80	cd12327, RRM2_DAZAP1, RNA recognition motif 2 in D	2e-07
cd12652	79	cd12652, RRM2_Hu, RNA recognition motif 2 in the H	3e-07
cd12347	73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	4e-07
cd12466	70	cd12466, RRM2_AtRSp31_like, RNA recognition motif	4e-07
cd12393	78	cd12393, RRM_ZCRB1, RNA recognition motif in Zinc	4e-07
cd12380	80	cd12380, RRM3_I_PABPs, RNA recognition motif 3 fou	4e-07
cd12346	72	cd12346, RRM3_NGR1_NAM8_like, RNA recognition moti	5e-07
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	5e-07
cd12398	75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	5e-07
cd12243	71	cd12243, RRM1_MSSP, RNA recognition motif 1 in the	7e-07
cd12674	79	cd12674, RRM1_Nop4p, RNA recognition motif 1 in ye	7e-07
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	7e-07
cd12552	77	cd12552, RRM_Nop15p, RNA recognition motif in yeas	8e-07
cd12402	77	cd12402, RRM_eIF4B, RNA recognition motif in eukar	1e-06
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	2e-06
cd12323	74	cd12323, RRM2_MSI, RNA recognition motif 2 in RNA-	2e-06
cd12251	72	cd12251, RRM3_hnRNPR_like, RNA recognition motif 3	2e-06
cd12273	71	cd12273, RRM1_NEFsp, RNA recognition motif 1 in ve	2e-06
cd12560	84	cd12560, RRM_SRSF12, RNA recognition motif in seri	2e-06
cd12358	73	cd12358, RRM1_VICKZ, RNA recognition motif 1 in th	3e-06
cd12608	69	cd12608, RRM1_CoAA, RNA recognition motif 1 in ver	3e-06
cd12447	76	cd12447, RRM1_gar2, RNA recognition motif 1 in yea	3e-06
cd12324	88	cd12324, RRM_RBM8, RNA recognition motif in RNA-bi	3e-06
cd12414	76	cd12414, RRM2_RBM28_like, RNA recognition motif 2	4e-06
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	4e-06
cd12352	72	cd12352, RRM1_TIA1_like, RNA recognition motif 1 i	4e-06
cd12384	76	cd12384, RRM_RBM24_RBM38_like, RNA recognition mot	4e-06
cd12570	76	cd12570, RRM5_MRD1, RNA recognition motif 5 in yea	4e-06
cd12339	71	cd12339, RRM2_SRSF1_4_like, RNA recognition motif	5e-06
cd12467	78	cd12467, RRM_Srp1p_like, RNA recognition motif 1 i	5e-06
cd12609	68	cd12609, RRM2_CoAA, RNA recognition motif 2 in ver	8e-06
cd12296	71	cd12296, RRM1_Prp24, RNA recognition motif 1 in fu	9e-06
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	9e-06
cd12418	75	cd12418, RRM_Aly_REF_like, RNA recognition motif i	1e-05
cd12365	73	cd12365, RRM_RNPS1, RNA recognition motif in RNA-b	1e-05
cd12328	73	cd12328, RRM2_hnRNPA_like, RNA recognition motif 2	1e-05
cd12227	77	cd12227, RRM_SCAF4_SCAF8, RNA recognition motif in	1e-05
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	2e-05
cd12378	80	cd12378, RRM1_I_PABPs, RNA recognition motif 1 in	2e-05
cd12564	76	cd12564, RRM1_RBM19, RNA recognition motif 1 in RN	2e-05
cd12361	77	cd12361, RRM1_2_CELF1-6_like, RNA recognition moti	2e-05
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	2e-05
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	3e-05
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	3e-05
cd12283	73	cd12283, RRM1_RBM39_like, RNA recognition motif 1	3e-05
cd12223	84	cd12223, RRM_SR140, RNA recognition motif (RRM) in	3e-05
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	3e-05
cd12689	80	cd12689, RRM1_hnRNPL_like, RNA recognition motif 1	3e-05
cd12447	76	cd12447, RRM1_gar2, RNA recognition motif 1 in yea	4e-05
cd12405	72	cd12405, RRM3_NCL, RNA recognition motif 3 in vert	4e-05
cd12224	74	cd12224, RRM_RBM22, RNA recognition motif (RRM) fo	4e-05
cd12776	81	cd12776, RRM2_HuC, RNA recognition motif 2 in vert	4e-05
cd12566	79	cd12566, RRM2_MRD1, RNA recognition motif 2 in yea	4e-05
cd12311	73	cd12311, RRM_SRSF2_SRSF8, RNA recognition motif in	4e-05
cd12579	80	cd12579, RRM2_hnRNPA0, RNA recognition motif 2 in	4e-05
cd12559	84	cd12559, RRM_SRSF10, RNA recognition motif in seri	5e-05
cd12320	76	cd12320, RRM6_RBM19_RRM5_MRD1, RNA recognition mot	5e-05
cd12335	83	cd12335, RRM2_SF3B4, RNA recognition motif 2 in sp	5e-05
PLN03134	144	PLN03134, PLN03134, glycine-rich RNA-binding prote	6e-05
cd12330	75	cd12330, RRM2_Hrp1p, RNA recognition motif 2 in ye	6e-05
TIGR01661	352	TIGR01661, ELAV_HUD_SF, ELAV/HuD family splicing f	6e-05
cd12661	77	cd12661, RRM3_hnRNPM, RNA recognition motif 3 in v	6e-05
cd12412	80	cd12412, RRM_DAZL_BOULE, RNA recognition motif in	7e-05
cd12375	77	cd12375, RRM1_Hu_like, RNA recognition motif 1 in	7e-05
cd12604	76	cd12604, RRM_RALY, RNA recognition motif in verteb	8e-05
cd12603	71	cd12603, RRM_hnRNPC, RNA recognition motif in vert	8e-05
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	9e-05
cd12236	91	cd12236, RRM_snRNP70, RNA recognition motif in U1	9e-05
cd12343	66	cd12343, RRM1_2_CoAA_like, RNA recognition motif 1	1e-04
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	1e-04
cd12334	74	cd12334, RRM1_SF3B4, RNA recognition motif 1 in sp	1e-04
cd12249	78	cd12249, RRM1_hnRNPR_like, RNA recognition motif 1	1e-04
cd12240	78	cd12240, RRM_NCBP2, RNA recognition motif found in	1e-04
cd12307	74	cd12307, RRM_NIFK_like, RNA recognition motif in n	1e-04
cd12495	72	cd12495, RRM3_hnRNPQ, RNA recognition motif 3 in v	1e-04
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	1e-04
cd12305	75	cd12305, RRM_NELFE, RNA recognition motif in negat	1e-04
cd12494	72	cd12494, RRM3_hnRNPR, RNA recognition motif 3 in v	1e-04
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	2e-04
cd12674	79	cd12674, RRM1_Nop4p, RNA recognition motif 1 in ye	2e-04
cd12378	80	cd12378, RRM1_I_PABPs, RNA recognition motif 1 in	2e-04
TIGR01645	612	TIGR01645, half-pint, poly-U binding splicing fact	2e-04
cd12332	71	cd12332, RRM1_p54nrb_like, RNA recognition motif 1	2e-04
cd12472	80	cd12472, RRM1_RBMS3, RNA recognition motif 1 found	2e-04
cd12662	77	cd12662, RRM3_MYEF2, RNA recognition motif 3 in ve	3e-04
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	3e-04
cd12371	77	cd12371, RRM2_PUF60, RNA recognition motif 2 in (U	3e-04
cd12386	74	cd12386, RRM2_hnRNPM_like, RNA recognition motif 2	3e-04
cd12588	71	cd12588, RRM1_p54nrb, RNA recognition motif 1 in v	4e-04
cd12448	73	cd12448, RRM2_gar2, RNA recognition motif 2 in yea	4e-04
cd12363	78	cd12363, RRM_TRA2, RNA recognition motif in transf	4e-04
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	5e-04
cd12401	76	cd12401, RRM_eIF4H, RNA recognition motif in eukar	5e-04
cd12325	72	cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition	5e-04
cd12276	71	cd12276, RRM2_MEI2_EAR1_like, RNA recognition moti	5e-04
cd12673	81	cd12673, RRM_BOULE, RNA recognition motif in prote	5e-04
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	6e-04
cd12529	71	cd12529, RRM2_MEI2_like, RNA recognition motif 2 i	6e-04
cd12621	74	cd12621, RRM3_TIA1, RNA recognition motif 3 in nuc	6e-04
TIGR01648	578	TIGR01648, hnRNP-R-Q, heterogeneous nuclear ribonu	6e-04
pfam08777	102	pfam08777, RRM_3, RNA binding motif	7e-04
cd12680	75	cd12680, RRM_THOC4, RNA recognition motif in THO c	7e-04
cd12454	80	cd12454, RRM2_RIM4_like, RNA recognition motif 2 i	7e-04
cd12409	84	cd12409, RRM1_RRT5, RNA recognition motif 1 in yea	8e-04
cd12418	75	cd12418, RRM_Aly_REF_like, RNA recognition motif i	0.001
cd12541	76	cd12541, RRM2_La, RNA recognition motif 2 in La au	0.001
cd12272	72	cd12272, RRM2_PHIP1, RNA recognition motif 2 in Ar	0.001
cd12321	77	cd12321, RRM1_TDP43, RNA recognition motif 1 in TA	0.001
cd12565	76	cd12565, RRM1_MRD1, RNA recognition motif 1 in yea	0.001
cd12322	71	cd12322, RRM2_TDP43, RNA recognition motif 2 in TA	0.001
cd12229	81	cd12229, RRM_G3BP, RNA recognition motif (RRM) in	0.001
cd12614	74	cd12614, RRM1_PUB1, RNA recognition motif 1 in yea	0.001
pfam06075	564	pfam06075, DUF936, Plant protein of unknown functi	0.001
cd12390	92	cd12390, RRM3_RAVER, RNA recognition motif 3 in ri	0.001
cd12244	79	cd12244, RRM2_MSSP, RNA recognition motif 2 in the	0.001
cd12271	72	cd12271, RRM1_PHIP1, RNA recognition motif 1 in Ar	0.001
cd12775	90	cd12775, RRM2_HuB, RNA recognition motif 2 in vert	0.001
cd12391	72	cd12391, RRM1_SART3, RNA recognition motif 1 in sq	0.001
cd12306	73	cd12306, RRM_II_PABPs, RNA recognition motif in ty	0.001
cd12774	81	cd12774, RRM2_HuD, RNA recognition motif 2 in vert	0.001
cd12527	71	cd12527, RRM2_EAR1_like, RNA recognition motif 2 i	0.001
cd12773	84	cd12773, RRM2_HuR, RNA recognition motif 2 in vert	0.001
cd12223	84	cd12223, RRM_SR140, RNA recognition motif (RRM) in	0.002
cd12681	69	cd12681, RRM_SKAR, RNA recognition motif in S6K1 A	0.002
cd12395	73	cd12395, RRM2_RBM34, RNA recognition motif 2 in RN	0.002
cd12376	79	cd12376, RRM2_Hu_like, RNA recognition motif 2 in	0.002
cd12666	77	cd12666, RRM2_RAVER2, RNA recognition motif 2 in v	0.002
cd12344	81	cd12344, RRM1_SECp43_like, RNA recognition motif 1	0.002
cd12397	73	cd12397, RRM2_Nop13p_fungi, RNA recognition motif	0.002
cd12318	82	cd12318, RRM5_RBM19_like, RNA recognition motif 5	0.002
cd12379	77	cd12379, RRM2_I_PABPs, RNA recognition motif 2 fou	0.002
cd12230	82	cd12230, RRM1_U2AF65, RNA recognition motif 1 foun	0.002
cd12573	79	cd12573, RRM2_MSI2, RNA recognition motif 2 in RNA	0.002
cd12380	80	cd12380, RRM3_I_PABPs, RNA recognition motif 3 fou	0.003
cd12365	73	cd12365, RRM_RNPS1, RNA recognition motif in RNA-b	0.003
cd12564	76	cd12564, RRM1_RBM19, RNA recognition motif 1 in RN	0.003
cd12320	76	cd12320, RRM6_RBM19_RRM5_MRD1, RNA recognition mot	0.003
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	0.003
cd12758	76	cd12758, RRM1_hnRPDL, RNA recognition motif 1 in h	0.003
cd12370	76	cd12370, RRM1_PUF60, RNA recognition motif 1 in (U	0.003
cd12400	74	cd12400, RRM_Nop6, RNA recognition motif in Saccha	0.003
cd12574	82	cd12574, RRM1_DAZAP1, RNA recognition motif 1 in D	0.003
cd12421	74	cd12421, RRM1_PTBP1_hnRNPL_like, RNA recognition m	0.003
PHA03307	1352	PHA03307, PHA03307, transcriptional regulator ICP4	0.003
cd12417	74	cd12417, RRM_SAFB_like, RNA recognition motif in t	0.003
cd12359	76	cd12359, RRM2_VICKZ, RNA recognition motif 2 in th	0.003
cd12420	79	cd12420, RRM_RBPMS_like, RNA recognition motif in	0.003
cd12363	78	cd12363, RRM_TRA2, RNA recognition motif in transf	0.004
cd12362	73	cd12362, RRM3_CELF1-6, RNA recognition motif 3 in	0.004
cd12620	73	cd12620, RRM3_TIAR, RNA recognition motif 3 in nuc	0.004
cd12675	83	cd12675, RRM2_Nop4p, RNA recognition motif 2 in ye	0.004

>gnl|CDD|241044 cd12600, RRM2_SRSF4_like, RNA recognition motif 2 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins

 Score =  134 bits (338), Expect = 2e-40
 Identities = 55/72 (76%), Positives = 64/72 (88%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           +RLIVENLSSRVSWQDLKDFMR+ GEV YADAHK+  NEGVVEF + SDMK+A++KLD  
Sbjct: 1   YRLIVENLSSRVSWQDLKDFMRKAGEVTYADAHKQRPNEGVVEFATYSDMKRAIEKLDGT 60

Query: 174 ELNGRRIRLIED 185
           ELNGR+I+LIED
Sbjct: 61  ELNGRKIKLIED 72

This subfamily corresponds to the RRM2 of 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 is 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 = 72

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

 Score =  121 bits (306), Expect = 1e-35
 Identities = 54/70 (77%), Positives = 60/70 (85%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
          +VYIG LPY  RERD+E+F KGYGRIR++ LKNGFGFVEFED RDADDAVYELNGK L G
Sbjct: 1  RVYIGRLPYRARERDVERFFKGYGRIREINLKNGFGFVEFEDPRDADDAVYELNGKELCG 60

Query: 65 ERVTVEIAKG 74
          ERV VE A+G
Sbjct: 61 ERVIVEHARG 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|241210 cd12766, RRM2_SRSF6, RNA recognition motif 2 found in vertebrate serine/arginine-rich splicing factor 6 (SRSF6)

 Score =  107 bits (268), Expect = 5e-30
 Identities = 56/73 (76%), Positives = 63/73 (86%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           +RLIVENLSSR SWQDLKDFMRQ GEV YADAHK   NEGV+EF S SDMK+AL+KLD  
Sbjct: 1   YRLIVENLSSRCSWQDLKDFMRQAGEVTYADAHKERANEGVIEFRSYSDMKRALEKLDGT 60

Query: 174 ELNGRRIRLIEDK 186
           E+NGR+IRL+EDK
Sbjct: 61  EINGRKIRLVEDK 73

This subgroup corresponds to the RRM2 of SRSF6, also termed pre-mRNA-splicing factor SRp55, an essential splicing regulatory serine/arginine (SR) protein that 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. For instance, it does not bind to the purine-rich sequence in the calcitonin-specific ESE, but binds to a region adjacent to the purine tract. Moreover, cellular levels of SRSF6 may control tissue-specific alternative splicing of the calcitonin/ calcitonin gene-related peptide (CGRP) pre-mRNA. SRSF6 contains 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 = 73

>gnl|CDD|240785 cd12339, RRM2_SRSF1_4_like, RNA recognition motif 2 in serine/arginine-rich splicing factor SRSF1, SRSF4 and similar proteins

 Score =  103 bits (259), Expect = 1e-28
 Identities = 38/71 (53%), Positives = 46/71 (64%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
            R++V  L    SWQDLKDF RQ G+V YAD  +    EGVVEF S  DM++AL KLD  
Sbjct: 1   FRVVVSGLPEGASWQDLKDFGRQAGDVTYADVDRDQEGEGVVEFTSQEDMERALRKLDGT 60

Query: 174 ELNGRRIRLIE 184
           E  GRR+R+ E
Sbjct: 61  EFRGRRVRVEE 71

This subfamily corresponds to the RRM2 of several serine/arginine (SR) proteins that have been classified into two subgroups. The first subgroup consists of serine/arginine-rich splicing factor 4 (SRSF4 or SRp75 or SFRS4), serine/arginine-rich splicing factor 5 (SRSF5 or SRp40 or SFRS5 or HRS) and serine/arginine-rich splicing factor 6 (SRSF6 or SRp55). The second subgroup is composed of serine/arginine-rich splicing factor 1 (SRSF1 or ASF-1), serine/arginine-rich splicing factor 9 (SRSF9 or SRp30C) and plant pre-mRNA-splicing factor SF2 (SR1). These SR proteins are mainly involved in regulating constitutive and alternative pre-mRNA splicing. They also have been implicated in transcription, genomic stability, mRNA export and translation. All SR proteins in this family, except SRSF5, undergo nucleocytoplasmic shuttling, suggesting their widespread roles in gene expression. These SR proteins share a common domain architecture comprising 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. Both domains can directly contact with RNA. The RRMs appear to determine the binding specificity and the SR domain also mediates protein-protein interactions. In addition, this subfamily includes the yeast nucleolar protein 3 (Npl3p), also termed mitochondrial targeting suppressor 1 protein, or nuclear polyadenylated RNA-binding protein 1. It is a major yeast RNA-binding protein that competes with 3'-end processing factors, such as Rna15, for binding to the nascent RNA, protecting the transcript from premature termination and coordinating transcription termination and the packaging of the fully processed transcript for export. It specifically recognizes a class of G/U-rich RNAs. Npl3p is a multi-domain protein with two RRMs, separated by a short linker and a C-terminal domain rich in glycine, arginine and serine residues. . Length = 71

>gnl|CDD|241208 cd12764, RRM2_SRSF4, RNA recognition motif 2 in vertebrate serine/arginine-rich splicing factor 4 (SRSF4)

 Score =  102 bits (255), Expect = 3e-28
 Identities = 54/72 (75%), Positives = 63/72 (87%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           +RLIVENLSSR SWQDLKD+MRQ GEV YADAHK  +NEGV+EF S SDMK+AL+KLD  
Sbjct: 1   YRLIVENLSSRCSWQDLKDYMRQAGEVTYADAHKGRKNEGVIEFRSYSDMKRALEKLDGT 60

Query: 174 ELNGRRIRLIED 185
           E+NGR+IRL+ED
Sbjct: 61  EVNGRKIRLVED 72

This subgroup corresponds to the RRM2 of SRSF4, also termed pre-mRNA-splicing factor SRp75, or SRP001LB, or splicing factor, arginine/serine-rich 4 (SFRS4), 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. SFRS4 also induces production of HIV-1 vpr mRNA through the inhibition of the 5'-splice site of exon 3. In addition, SRSF4 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 RS domains rich in serine-arginine dipeptides. . Length = 72

>gnl|CDD|241209 cd12765, RRM2_SRSF5, RNA recognition motif 2 in vertebrate serine/arginine-rich splicing factor 5 (SRSF5)

 Score =  102 bits (255), Expect = 4e-28
 Identities = 52/74 (70%), Positives = 63/74 (85%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL 170
           R+++RLIVENLSSRVSWQDLKDFMRQ GEV +ADAH+   NEGVVEF S SD+K A++KL
Sbjct: 1   RTENRLIVENLSSRVSWQDLKDFMRQAGEVTFADAHRPKLNEGVVEFASYSDLKNAIEKL 60

Query: 171 DNAELNGRRIRLIE 184
              E+NGR+I+LIE
Sbjct: 61  SGKEINGRKIKLIE 74

This subgroup corresponds to the RRM2 of SRSF5, also termed delayed-early protein HRS, or pre-mRNA-splicing factor SRp40, or splicing factor, arginine/serine-rich 5 (SFRS5), is an essential splicing regulatory serine/arginine (SR) protein that 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 it is necessary for enhancer activation. SRSF5 also functions as a factor required for insulin-regulated splice site selection for protein kinase C (PKC) betaII mRNA. It is involved in the regulation of PKCbetaII exon inclusion by insulin via its increased phosphorylation by a phosphatidylinositol 3-kinase (PI 3-kinase) signaling pathway. Moreover, SRSF5 can regulate alternative splicing in exon 9 of glucocorticoid receptor pre-mRNA in a dose-dependent manner. SRSF5 contains 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. The specific RNA binding by SRSF5 requires the phosphorylation of its SR domain. . Length = 75

>gnl|CDD|241040 cd12596, RRM1_SRSF6, RNA recognition motif 1 in vertebrate serine/arginine-rich splicing factor 6 (SRSF6)

 Score = 97.3 bits (242), Expect = 3e-26
 Identities = 47/70 (67%), Positives = 58/70 (82%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
          +VYIG L Y VRE+D+++F  GYG++ ++ LKNG+GFVEFED RDADDAVYELNGK L G
Sbjct: 1  RVYIGRLSYHVREKDIQRFFGGYGKLLEIDLKNGYGFVEFEDSRDADDAVYELNGKDLCG 60

Query: 65 ERVTVEIAKG 74
          ERV VE A+G
Sbjct: 61 ERVIVEHARG 70

This subfamily corresponds to the RRM1 of SRSF6, also termed pre-mRNA-splicing factor SRp55, which is an essential splicing regulatory serine/arginine (SR) protein that 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. For instance, it does not bind to the purine-rich sequence in the calcitonin-specific ESE, but binds to a region adjacent to the purine tract. Moreover, cellular levels of SRSF6 may control tissue-specific alternative splicing of the calcitonin/ calcitonin gene-related peptide (CGRP) pre-mRNA. SRSF6 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a C-terminal SR 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 = 87.4 bits (216), Expect = 2e-22
 Identities = 51/73 (69%), Positives = 59/73 (80%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
          +VYIG L Y  RERD+E+F KGYG+I +V LKNG+GFVEF+D RDADDAVYELNGK L G
Sbjct: 1  RVYIGRLSYQARERDVERFFKGYGKILEVDLKNGYGFVEFDDLRDADDAVYELNGKDLCG 60

Query: 65 ERVTVEIAKGIDR 77
          ERV VE A+G  R
Sbjct: 61 ERVIVEHARGPRR 73

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|241039 cd12595, RRM1_SRSF5, RNA recognition motif 1 in vertebrate serine/arginine-rich splicing factor 5 (SRSF5)

 Score = 85.8 bits (212), Expect = 8e-22
 Identities = 46/69 (66%), Positives = 56/69 (81%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
          +V+IG L    RE+D+E+F KGYGRIRD+ LK GFGFVEF+D RDADDAVYEL+GK L  
Sbjct: 1  RVFIGRLNPAAREKDVERFFKGYGRIRDIDLKRGFGFVEFDDPRDADDAVYELDGKELCN 60

Query: 65 ERVTVEIAK 73
          ERVT+E A+
Sbjct: 61 ERVTIEHAR 69

This subgroup corresponds to the RRM1 of SRSF5, also termed delayed-early protein HRS, or pre-mRNA-splicing factor SRp40, or splicing factor, arginine/serine-rich 5 (SFRS5). SFSF5 is an essential splicing regulatory serine/arginine (SR) protein that 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 it is necessary for enhancer activation. SRSF5 also functions as a factor required for insulin-regulated splice site selection for protein kinase C (PKC) betaII mRNA. It is involved in the regulation of PKCbetaII exon inclusion by insulin via its increased phosphorylation by a phosphatidylinositol 3-kinase (PI 3-kinase) signaling pathway. Moreover, SRSF5 can regulate alternative splicing in exon 9 of glucocorticoid receptor pre-mRNA in a dose-dependent manner. SRSF5 contains 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. The specific RNA binding by SRSF5 requires the phosphorylation of its SR domain. . Length = 70

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

 Score = 84.2 bits (209), Expect = 3e-21
 Identities = 35/73 (47%), Positives = 49/73 (67%), Gaps = 3/73 (4%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN--GFGFVEFEDYRDADDAVYELNGKS 61
          KVY+G L     +R+LE   + YG +R V + +N  GF FVEFED RDA+DAV  L+G+ 
Sbjct: 1  KVYVGNLGPRATKRELEDEFEKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRALDGRR 60

Query: 62 LLGERVTVEIAKG 74
          + G RV VE+++G
Sbjct: 61 ICGNRVRVELSRG 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|240828 cd12382, RRM_RBMX_like, RNA recognition motif in heterogeneous nuclear ribonucleoprotein G (hnRNP G), Y chromosome RNA recognition motif 1 (hRBMY), testis-specific heterogeneous nuclear ribonucleoprotein G-T (hnRNP G-T) and similar proteins

 Score = 74.6 bits (184), Expect = 2e-17
 Identities = 32/79 (40%), Positives = 46/79 (58%), Gaps = 8/79 (10%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAV 54
          G K+++ GL     E++LE     +GR+ +V ++K+       GFGFV FE   DAD A+
Sbjct: 1  GNKLFVSGLSTRTTEKELEALFSKFGRVEEVLLMKDPETGESRGFGFVTFESVEDADAAI 60

Query: 55 YELNGKSLLGERVTVEIAK 73
           +LNGK L G  + VE AK
Sbjct: 61 RDLNGKELEGRVIKVEKAK 79

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

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

 Score = 73.4 bits (181), Expect = 4e-17
 Identities = 25/73 (34%), Positives = 36/73 (49%), Gaps = 8/73 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
           +++G LP    E +L +    +G++  V L          GF FVEFE   DA+ A+  
Sbjct: 1  TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEA 60

Query: 57 LNGKSLLGERVTV 69
          LNGK L G  + V
Sbjct: 61 LNGKELDGRPLKV 73

Length = 73

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

 Score = 71.9 bits (177), Expect = 1e-16
 Identities = 25/70 (35%), Positives = 35/70 (50%), Gaps = 7/70 (10%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------GFGFVEFEDYRDADDAVYELN 58
          +++G LP    E DL+     +G I  + +         GF FVEFED  DA+ A+  LN
Sbjct: 1  LFVGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKGFAFVEFEDEEDAEKALEALN 60

Query: 59 GKSLLGERVT 68
          GK L G  + 
Sbjct: 61 GKELGGRELR 70

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

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

 Score = 71.5 bits (176), Expect = 2e-16
 Identities = 25/70 (35%), Positives = 34/70 (48%), Gaps = 4/70 (5%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKLD 171
           L V NL    + +DLKD   + G +       D   R +    VEFE   D +KAL+ L+
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKGFAFVEFEDEEDAEKALEALN 60

Query: 172 NAELNGRRIR 181
             EL GR +R
Sbjct: 61  GKELGGRELR 70

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

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

 Score = 70.0 bits (172), Expect = 6e-16
 Identities = 26/72 (36%), Positives = 36/72 (50%), Gaps = 7/72 (9%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------GFGFVEFEDYRDADDAVYELN 58
          +++G LP    E DL +    +G I  V +         GF FVEFE   DA+ A+  LN
Sbjct: 1  LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEALN 60

Query: 59 GKSLLGERVTVE 70
          GK L G ++ V 
Sbjct: 61 GKELDGRKLKVS 72

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

>gnl|CDD|240784 cd12338, RRM1_SRSF1_like, RNA recognition motif 1 in serine/arginine-rich splicing factor 1 (SRSF1) and similar proteins

 Score = 69.7 bits (171), Expect = 1e-15
 Identities = 33/71 (46%), Positives = 43/71 (60%), Gaps = 5/71 (7%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNG-----FGFVEFEDYRDADDAVYELNG 59
          ++Y+G LP  +RERD+E     YG I+ + LKN      F FVEFED RDA+DAV   +G
Sbjct: 1  RIYVGNLPGDIRERDIEDLFYKYGPIKAIDLKNRRRGPPFAFVEFEDPRDAEDAVRGRDG 60

Query: 60 KSLLGERVTVE 70
              G R+ VE
Sbjct: 61 YDFDGYRLRVE 71

This subgroup corresponds to the RRM1 in three serine/arginine (SR) proteins: serine/arginine-rich splicing factor 1 (SRSF1 or ASF-1), serine/arginine-rich splicing factor 9 (SRSF9 or SRp30C), and plant pre-mRNA-splicing factor SF2 (SR1). SRSF1 is a shuttling SR protein involved in constitutive and alternative splicing, nonsense-mediated mRNA decay (NMD), mRNA export and translation. It also functions as a splicing-factor oncoprotein that regulates apoptosis and proliferation to promote mammary epithelial cell transformation. SRSF9 has been implicated in the activity of many elements that control splice site selection, the alternative splicing of the glucocorticoid receptor beta in neutrophils and in the gonadotropin-releasing hormone pre-mRNA. It can also interact with other proteins implicated in alternative splicing, including YB-1, rSLM-1, rSLM-2, E4-ORF4, Nop30, and p32. Both, SRSF1 and SRSF9, contain two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal RS domains rich in serine-arginine dipeptides. In contrast, SF2 contains two N-terminal RRMs and a C-terminal PSK domain rich in proline, serine and lysine residues. . Length = 72

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

 Score = 66.5 bits (163), Expect = 2e-14
 Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 5/73 (6%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYAD-----AHKRHRNEGVVEFESSSDMKKALDK 169
            L V NL    + ++L++   + G+V            + +    VEFES  D +KAL+ 
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEA 60

Query: 170 LDNAELNGRRIRL 182
           L+  EL+GR +++
Sbjct: 61  LNGKELDGRPLKV 73

Length = 73

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

 Score = 63.9 bits (156), Expect = 1e-13
 Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 4/71 (5%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKLD 171
           L V NL    + +DL++   + GE+       D   + +    VEFES  D +KAL+ L+
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEALN 60

Query: 172 NAELNGRRIRL 182
             EL+GR++++
Sbjct: 61  GKELDGRKLKV 71

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

>gnl|CDD|241045 cd12601, RRM2_SRSF1_like, RNA recognition motif 2 in serine/arginine-rich splicing factor SRSF1, SRSF9 and similar proteins

 Score = 63.7 bits (155), Expect = 2e-13
 Identities = 31/61 (50%), Positives = 41/61 (67%), Gaps = 2/61 (3%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           +R+IV  L    SWQDLKD MR+ G+VCYAD ++     GVVEF    DMK A+ KLD++
Sbjct: 1   YRVIVSGLPPTGSWQDLKDHMREAGDVCYADVYR--DGTGVVEFLRYEDMKYAVKKLDDS 58

Query: 174 E 174
           +
Sbjct: 59  K 59

This subfamily corresponds to the RRM2 of serine/arginine-rich splicing factor SRSF1, SRSF9 and similar proteins. SRSF1, also termed ASF-1, is a shuttling SR protein involved in constitutive and alternative splicing, nonsense-mediated mRNA decay (NMD), mRNA export and translation. It also functions as a splicing-factor oncoprotein that regulates apoptosis and proliferation to promote mammary epithelial cell transformation. SRSF9, also termed SRp30C, has been implicated in the activity of many elements that control splice site selection, the alternative splicing of the glucocorticoid receptor beta in neutrophils and in the gonadotropin-releasing hormone pre-mRNA. SRSF9 can also interact with other proteins implicated in alternative splicing, including YB-1, rSLM-1, rSLM-2, E4-ORF4, Nop30, and p32. Both, SRSF1 and SRSF9, contain two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal RS domains rich in serine-arginine dipeptides. . Length = 74

>gnl|CDD|241046 cd12602, RRM2_SF2_plant_like, RNA recognition motif 2 in plant pre-mRNA-splicing factor SF2 and similar proteins

 Score = 62.9 bits (153), Expect = 4e-13
 Identities = 28/61 (45%), Positives = 40/61 (65%), Gaps = 1/61 (1%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRN-EGVVEFESSSDMKKALDKLDNA 173
           R++V  L S  SWQDLKD MR+ G+VC++   +  R   G+V+F +  DMK A+ KLD+ 
Sbjct: 2   RVLVTGLPSSASWQDLKDHMRRAGDVCFSQVFRDGRGTTGIVDFTNYDDMKYAIRKLDDT 61

Query: 174 E 174
           E
Sbjct: 62  E 62

This subfamily corresponds to the RRM2 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 = 76

>gnl|CDD|241042 cd12598, RRM1_SRSF9, RNA recognition motif 1 in vertebrate serine/arginine-rich splicing factor 9 (SRSF9)

 Score = 62.5 bits (152), Expect = 5e-13
 Identities = 36/71 (50%), Positives = 44/71 (61%), Gaps = 5/71 (7%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNG-----FGFVEFEDYRDADDAVYELNG 59
          ++Y+G LP  VRE+DLE     YGRIRD+ LKN      F FV FED RDA+DAV+  NG
Sbjct: 1  RIYVGNLPSDVREKDLEDLFYKYGRIRDIELKNRRGLVPFAFVRFEDPRDAEDAVFGRNG 60

Query: 60 KSLLGERVTVE 70
                R+ VE
Sbjct: 61 YDFGQCRLRVE 71

This subgroup corresponds to the RRM1 of SRSF9, also termed pre-mRNA-splicing factor SRp30C. SRSF9 is an essential splicing regulatory serine/arginine (SR) protein that has been implicated in the activity of many elements that control splice site selection, the alternative splicing of the glucocorticoid receptor beta in neutrophils and in the gonadotropin-releasing hormone pre-mRNA. SRSF9 can also interact with other proteins implicated in alternative splicing, including YB-1, rSLM-1, rSLM-2, E4-ORF4, Nop30, and p32. SRSF9 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by an unusually short C-terminal RS domains rich in serine-arginine dipeptides. . Length = 72

>gnl|CDD|240833 cd12387, RRM3_hnRNPM_like, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein M (hnRNP M) and similar proteins

 Score = 62.3 bits (152), Expect = 5e-13
 Identities = 26/69 (37%), Positives = 37/69 (53%), Gaps = 4/69 (5%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLD 171
           + V NL   V+WQDLKD  R+ G V  AD       R +  G V FES  D ++A++  +
Sbjct: 1   IFVRNLPFSVTWQDLKDLFRECGNVLRADVKTDNDGRSKGFGTVLFESPEDAQRAIEMFN 60

Query: 172 NAELNGRRI 180
             +L GR +
Sbjct: 61  GYDLEGREL 69

This subfamily corresponds to the RRM3 of heterogeneous nuclear ribonucleoprotein M (hnRNP M), myelin expression factor 2 (MEF-2 or MyEF-2 or MST156) and similar proteins. hnRNP M is pre-mRNA binding protein that may play an important role in the pre-mRNA processing. It also preferentially binds to poly(G) and poly(U) RNA homopolymers. hnRNP M is able to interact with early spliceosomes, further influencing splicing patterns of specific pre-mRNAs. hnRNP M functions as the receptor of carcinoembryonic antigen (CEA) that contains the penta-peptide sequence PELPK signaling motif. In addition, hnRNP M and another splicing factor Nova-1 work together as dopamine D2 receptor (D2R) pre-mRNA-binding proteins. They regulate alternative splicing of D2R pre-mRNA in an antagonistic manner. hnRNP M contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an unusual hexapeptide-repeat region rich in methionine and arginine residues (MR repeat motif). MEF-2 is a sequence-specific single-stranded DNA (ssDNA) binding protein that binds specifically to ssDNA derived from the proximal (MB1) element of the myelin basic protein (MBP) promoter and represses transcription of the MBP gene. MEF-2 shows high sequence homology with hnRNP M. It also contains three RRMs, which may be responsible for its ssDNA binding activity. . 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 = 60.9 bits (148), Expect = 1e-12
 Identities = 31/71 (43%), Positives = 44/71 (61%), Gaps = 5/71 (7%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGK 60
          VY+G LP  +RER++E     YG I D+ LK      G+ F+EFED RDA+DA+   +G 
Sbjct: 2  VYVGNLPGDIREREVEDLFYKYGPIVDIDLKLPPRPPGYAFIEFEDARDAEDAIRGRDGY 61

Query: 61 SLLGERVTVEI 71
             G+R+ VE+
Sbjct: 62 DFDGQRLRVEL 72

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

>gnl|CDD|240679 cd12233, RRM_Srp1p_AtRSp31_like, RNA recognition motif found in fission yeast pre-mRNA-splicing factor Srp1p, Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins

 Score = 59.4 bits (144), Expect = 6e-12
 Identities = 24/62 (38%), Positives = 34/62 (54%)

Query: 12 PYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEI 71
          P   RE D+EK  + +G +    ++  F FVEFED  DA  A+  L+G  + G  +TVE 
Sbjct: 9  PGTTREEDIEKLFEPFGPLVRCDIRKTFAFVEFEDSEDATKALEALHGSRIDGSVLTVEF 68

Query: 72 AK 73
           K
Sbjct: 69 VK 70

This subfamily corresponds to the RRM of Srp1p and RRM2 of plant SR splicing factors. Srp1p is encoded by gene srp1 from fission yeast Schizosaccharomyces pombe. It plays a role in the pre-mRNA splicing process, but is not essential for growth. Srp1p is closely related to the SR protein family found in Metazoa. It contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a glycine hinge and a RS domain in the middle, and a C-terminal domain. The family also includes a novel group of arginine/serine (RS) or serine/arginine (SR) splicing factors existing in plants, such as A. thaliana RSp31, RSp35, RSp41 and similar proteins. Like vertebrate RS splicing factors, these proteins function as plant splicing factors and play crucial roles in constitutive and alternative splicing in plants. They all contain two RRMs at their N-terminus and an RS domain at their C-terminus. Length = 70

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

 Score = 59.5 bits (145), Expect = 6e-12
 Identities = 26/77 (33%), Positives = 38/77 (49%), Gaps = 8/77 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
           +Y+G LPY V E DL+     +G +    +          GFGFVE E   +A+ A+ +
Sbjct: 1  NLYVGNLPYNVTEEDLKDLFGQFGEVTSARVITDRETGRSRGFGFVEMETAEEANAAIEK 60

Query: 57 LNGKSLLGERVTVEIAK 73
          LNG    G  +TV  A+
Sbjct: 61 LNGTDFGGRTLTVNEAR 77

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

>gnl|CDD|241041 cd12597, RRM1_SRSF1, RNA recognition motif 1 in serine/arginine-rich splicing factor 1 (SRSF1) and similar proteins

 Score = 59.4 bits (144), Expect = 7e-12
 Identities = 34/70 (48%), Positives = 44/70 (62%), Gaps = 4/70 (5%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN----GFGFVEFEDYRDADDAVYELNGK 60
          ++Y+G LP  +R +D+E     YG IRD+ LKN     F FVEFED RDA+DAVY  +G 
Sbjct: 1  RIYVGNLPPDIRTKDIEDLFYKYGAIRDIDLKNRRGPPFAFVEFEDPRDAEDAVYGRDGY 60

Query: 61 SLLGERVTVE 70
             G R+ VE
Sbjct: 61 DYDGYRLRVE 70

This subgroup corresponds to the RRM1 of SRSF1, also termed alternative-splicing factor 1 (ASF-1), or pre-mRNA-splicing factor SF2, P33 subunit. SRSF1 is a splicing regulatory serine/arginine (SR) protein involved in constitutive and alternative splicing, nonsense-mediated mRNA decay (NMD), mRNA export and translation. It also functions as a splicing-factor oncoprotein that regulates apoptosis and proliferation to promote mammary epithelial cell transformation. SRSF1 is a shuttling SR protein and contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), separated by a long glycine-rich spacer, and a C-terminal RS domains rich in serine-arginine dipeptides. . Length = 73

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

 Score = 58.9 bits (142), Expect = 1e-11
 Identities = 38/76 (50%), Positives = 50/76 (65%), Gaps = 3/76 (3%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN--GFGFVEFEDYRDADDAVYELNGKS 61
          KVY+G L  G  + +LE+    YG +R V I +N  GF FVEFED RDA+DAV  L+GK 
Sbjct: 1  KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKV 60

Query: 62 LLGERVTVEIAKGIDR 77
          + G RV VE++ G+ R
Sbjct: 61 ICGSRVRVELSTGMPR 76

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|240831 cd12385, RRM1_hnRNPM_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein M (hnRNP M) and similar proteins

 Score = 58.6 bits (142), Expect = 1e-11
 Identities = 30/76 (39%), Positives = 45/76 (59%), Gaps = 5/76 (6%)

Query: 115 RLIVENLSSRVSWQDLKDFMR-QVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDK 169
           R+ + N+   + WQDLKD  R +VGEV Y     D   + R  GVVEF+    ++KAL+ 
Sbjct: 1   RVFISNIPYDLKWQDLKDLFREKVGEVTYVELFKDEEGKSRGCGVVEFKDKESVQKALET 60

Query: 170 LDNAELNGRRIRLIED 185
           ++  EL GR++ + ED
Sbjct: 61  MNRYELKGRKLVVKED 76

This subfamily corresponds to the RRM1 of heterogeneous nuclear ribonucleoprotein M (hnRNP M), myelin expression factor 2 (MEF-2 or MyEF-2 or MST156) and similar proteins. hnRNP M is pre-mRNA binding protein that may play an important role in the pre-mRNA processing. It also preferentially binds to poly(G) and poly(U) RNA homopolymers. Moreover, hnRNP M is able to interact with early spliceosomes, further influencing splicing patterns of specific pre-mRNAs. hnRNP M functions as the receptor of carcinoembryonic antigen (CEA) that contains the penta-peptide sequence PELPK signaling motif. In addition, hnRNP M and another splicing factor Nova-1 work together as dopamine D2 receptor (D2R) pre-mRNA-binding proteins. They regulate alternative splicing of D2R pre-mRNA in an antagonistic manner. hnRNP M contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an unusual hexapeptide-repeat region rich in methionine and arginine residues (MR repeat motif). MEF-2 is a sequence-specific single-stranded DNA (ssDNA) binding protein that binds specifically to ssDNA derived from the proximal (MB1) element of the myelin basic protein (MBP) promoter and represses transcription of the MBP gene. MEF-2 shows high sequence homology with hnRNP M. It also contains three RRMs, which may be responsible for its ssDNA binding activity. . Length = 76

>gnl|CDD|241089 cd12645, RRM_SRSF3, RNA recognition motif in vertebrate serine/arginine-rich splicing factor 3 (SRSF3)

 Score = 58.9 bits (142), Expect = 1e-11
 Identities = 37/76 (48%), Positives = 49/76 (64%), Gaps = 3/76 (3%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN--GFGFVEFEDYRDADDAVYELNGKS 61
          KVY+G L     + +LE+    YG +R V + +N  GF FVEFED RDA DAV EL+G++
Sbjct: 6  KVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRT 65

Query: 62 LLGERVTVEIAKGIDR 77
          L G RV VE++ G  R
Sbjct: 66 LCGCRVRVELSNGEKR 81

This subgroup corresponds to the RRM of SRSF3, also termed pre-mRNA-splicing factor SRp20, a splicing regulatory serine/arginine (SR) protein that 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. SRSF3 can shuttle between the nucleus and cytoplasm. It contains 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 = 81

>gnl|CDD|241212 cd12768, RRM2_SRSF9, RNA recognition motif 2 in vertebrate serine/arginine-rich splicing factor 9 (SRSF9)

 Score = 58.5 bits (141), Expect = 2e-11
 Identities = 32/61 (52%), Positives = 38/61 (62%), Gaps = 2/61 (3%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAE 174
           R+IV  L    SWQDLKD MR+ G+VCYAD  K     GVVEF    DM+ AL KLD+ +
Sbjct: 2   RVIVSGLPPSGSWQDLKDHMREAGDVCYADVQK--DGMGVVEFLRKEDMEYALRKLDDTK 59

Query: 175 L 175
            
Sbjct: 60  F 60

This subgroup corresponds to the RRM2 of SRSF9, also termed pre-mRNA-splicing factor SRp30C, an essential splicing regulatory serine/arginine (SR) protein that has been implicated in the activity of many elements that control splice site selection, the alternative splicing of the glucocorticoid receptor beta in neutrophils and in the gonadotropin-releasing hormone pre-mRNA. SRSF9 can also interact with other proteins implicated in alternative splicing, including YB-1, rSLM-1, rSLM-2, E4-ORF4, Nop30, and p32. SRSF9 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by an unusually short C-terminal RS domains rich in serine-arginine dipeptides. . Length = 76

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

 Score = 57.6 bits (140), Expect = 2e-11
 Identities = 24/67 (35%), Positives = 40/67 (59%), Gaps = 2/67 (2%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
          K+++G LP      +L    + YG + +  ++KN +GFV  E+  DA+DA+  LNG   +
Sbjct: 1  KLFVGNLPDATTSEELRALFEKYGTVTECDVVKN-YGFVHMEEEEDAEDAIKALNGYEFM 59

Query: 64 GERVTVE 70
          G+R+ VE
Sbjct: 60 GKRINVE 66

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

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

 Score = 57.0 bits (138), Expect = 6e-11
 Identities = 27/79 (34%), Positives = 41/79 (51%), Gaps = 8/79 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
          T +Y+  +    R  DL +    YG I DV +          GF +V+FED RDA+DA+Y
Sbjct: 1  TSLYVRNVADATRPDDLRRLFGKYGPIVDVYIPLDFYTRRPRGFAYVQFEDVRDAEDALY 60

Query: 56 ELNGKSLLGERVTVEIAKG 74
           L+    LG  + ++ A+G
Sbjct: 61 YLDRTRFLGREIEIQFAQG 79

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|222631 pfam14259, RRM_6, RNA recognition motif (a

 Score = 55.6 bits (135), Expect = 1e-10
 Identities = 25/69 (36%), Positives = 33/69 (47%), Gaps = 3/69 (4%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVG---EVCYADAHKRHRNEGVVEFESSSDMKKALDKLDN 172
           L V NL   V+ +DL++F    G    V       R R    VEF S  D + AL KL+ 
Sbjct: 1   LYVRNLPPSVTEEDLREFFSPYGKVEGVRLVRNKDRPRGFAFVEFASPEDAEAALKKLNG 60

Query: 173 AELNGRRIR 181
             L+GR +R
Sbjct: 61  LVLDGRTLR 69

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

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

 Score = 54.5 bits (132), Expect = 3e-10
 Identities = 23/66 (34%), Positives = 39/66 (59%), Gaps = 2/66 (3%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKS 61
          T VY+G LP+G+ E +L++    +G I +V +    G+ FV F+ +  A  A+  +NG S
Sbjct: 1  TTVYVGNLPHGLTEEELQRTFSPFGAIEEVRVFKDKGYAFVRFDTHEAAATAIVAVNGTS 60

Query: 62 LLGERV 67
          + G+ V
Sbjct: 61 INGQTV 66

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

>gnl|CDD|241101 cd12657, RRM1_hnRNPM, RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein M (hnRNP M)

 Score = 54.3 bits (130), Expect = 5e-10
 Identities = 31/76 (40%), Positives = 44/76 (57%), Gaps = 5/76 (6%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQ-VGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDK 169
           R  + N+   V WQ LKD +++ VGEV Y     DA  + R   VVEF+    MKKA++ 
Sbjct: 1   RAFISNIPFDVKWQSLKDLVKEKVGEVTYVELLMDAEGKSRGCAVVEFKMEESMKKAVEV 60

Query: 170 LDNAELNGRRIRLIED 185
           L+   LNGR +++ ED
Sbjct: 61  LNKHVLNGRPLKVKED 76

This subgroup corresponds to the RRM1 of hnRNP M, a pre-mRNA binding protein that may play an important role in the pre-mRNA processing. It also preferentially binds to poly(G) and poly(U) RNA homopolymers. Moreover, hnRNP M is able to interact with early spliceosomes, further influencing splicing patterns of specific pre-mRNAs. hnRNP M functions as the receptor of carcinoembryonic antigen (CEA) that contains the penta-peptide sequence PELPK signaling motif. In addition, hnRNP M and another splicing factor Nova-1 work together as dopamine D2 receptor (D2R) pre-mRNA-binding proteins. They regulate alternative splicing of D2R pre-mRNA in an antagonistic manner. hnRNP M contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an unusual hexapeptide-repeat region rich in methionine and arginine residues (MR repeat motif). . Length = 76

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

 Score = 53.7 bits (130), Expect = 6e-10
 Identities = 26/68 (38%), Positives = 35/68 (51%), Gaps = 6/68 (8%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNG 59
          +Y+  LP  V E DL +F   YG++  V L        GF FVEF    DA+ A+ +LNG
Sbjct: 1  LYVRNLPPSVTEEDLREFFSPYGKVEGVRLVRNKDRPRGFAFVEFASPEDAEAALKKLNG 60

Query: 60 KSLLGERV 67
            L G  +
Sbjct: 61 LVLDGRTL 68

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

>gnl|CDD|241211 cd12767, RRM2_SRSF1, RNA recognition motif 2 in serine/arginine-rich splicing factor 1 (SRSF1) and similar proteins

 Score = 53.9 bits (129), Expect = 7e-10
 Identities = 30/62 (48%), Positives = 38/62 (61%), Gaps = 2/62 (3%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           +R++V  L    SWQDLKD MR+ G+VCYAD  +     GVVEF    DM  A+ KLDN 
Sbjct: 1   YRVVVSGLPPSGSWQDLKDHMREAGDVCYADVFR--DGTGVVEFVRKEDMTYAVRKLDNT 58

Query: 174 EL 175
           + 
Sbjct: 59  KF 60

This subgroup corresponds to the RRM2 of SRSF1, also termed alternative-splicing factor 1 (ASF-1), or pre-mRNA-splicing factor SF2, P33 subunit, a splicing regulatory serine/arginine (SR) protein involved in constitutive and alternative splicing, nonsense-mediated mRNA decay (NMD), mRNA export and translation. It also functions as a splicing-factor oncoprotein that regulates apoptosis and proliferation to promote mammary epithelial cell transformation. SRSF1 is a shuttling SR protein and contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), separated by a long glycine-rich spacer, and a C-terminal SR domains rich in serine-arginine dipeptides. . Length = 76

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

 Score = 52.2 bits (126), Expect = 3e-09
 Identities = 25/72 (34%), Positives = 37/72 (51%), Gaps = 8/72 (11%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KN-GFGFVEFEDYRDADDAVYEL 57
          +Y+GGL   V E+ L      +G I+D+ +       K+ GF FVEFE+  DA  A+  +
Sbjct: 1  LYVGGLAEEVDEKVLHAAFIPFGDIKDIQIPLDYETQKHRGFAFVEFEEPEDAAAAIDNM 60

Query: 58 NGKSLLGERVTV 69
          N   L G  + V
Sbjct: 61 NESELFGRTIRV 72

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|241102 cd12658, RRM1_MYEF2, RNA recognition motif 1 in vertebrate myelin expression factor 2 (MEF-2)

 Score = 51.9 bits (124), Expect = 3e-09
 Identities = 31/76 (40%), Positives = 46/76 (60%), Gaps = 5/76 (6%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQ-VGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDK 169
           R+ + N+   + WQ +KD MR+ VGEV Y     DA  + R  GVVEF+    +KKAL+ 
Sbjct: 1   RVFISNIPYDMKWQAIKDLMREKVGEVTYVELFKDAEGKSRGCGVVEFKDEEFVKKALEV 60

Query: 170 LDNAELNGRRIRLIED 185
           ++  +LNGR + + ED
Sbjct: 61  MNKYDLNGRPLNIKED 76

This subgroup corresponds to the RRM1 of MEF-2, also termed MyEF-2 or MST156, a sequence-specific single-stranded DNA (ssDNA) binding protein that binds specifically to ssDNA derived from the proximal (MB1) element of the myelin basic protein (MBP) promoter and represses transcription of the MBP gene. MEF-2 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which may be responsible for its ssDNA binding activity. . Length = 76

>gnl|CDD|240680 cd12234, RRM1_AtRSp31_like, RNA recognition motif in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants

 Score = 51.4 bits (123), Expect = 6e-09
 Identities = 27/70 (38%), Positives = 39/70 (55%), Gaps = 2/70 (2%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL--L 63
          V+ G   Y  R+ ++E+    YGR+  V +K+GF FV  ED RDA+DA+  L+       
Sbjct: 3  VFCGNFEYDARQSEIERLFGKYGRVDRVDMKSGFAFVYMEDERDAEDAIRGLDNFEFGRQ 62

Query: 64 GERVTVEIAK 73
            R+ VE AK
Sbjct: 63 RRRLRVEWAK 72

This subfamily corresponds to the RRM1in a family that represents a novel group of arginine/serine (RS) or serine/arginine (SR) splicing factors existing in plants, such as A. thaliana RSp31, RSp35, RSp41 and similar proteins. Like vertebrate RS splicing factors, these proteins function as plant splicing factors and play crucial roles in constitutive and alternative splicing in plants. They all contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), at their N-terminus, and an RS domain at their C-terminus. Length = 72

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

 Score = 51.4 bits (123), Expect = 7e-09
 Identities = 30/76 (39%), Positives = 46/76 (60%), Gaps = 8/76 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
          K++IGGL +   E+ LE+    YG+I +V++          GFGFV FE+  DA DA+  
Sbjct: 2  KLFIGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENPDDAKDAMMA 61

Query: 57 LNGKSLLGERVTVEIA 72
          +NGKS+ G ++ V+ A
Sbjct: 62 MNGKSVDGRQIRVDQA 77

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

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

 Score = 51.3 bits (123), Expect = 8e-09
 Identities = 22/75 (29%), Positives = 42/75 (56%), Gaps = 7/75 (9%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYEL 57
          K+++ GLP+ V + +LEK  K +G ++ V L         G  +VE+E+   A  AV ++
Sbjct: 4  KLFVSGLPFSVTKEELEKLFKKHGVVKSVRLVTNRSGKPKGLAYVEYENESSASQAVLKM 63

Query: 58 NGKSLLGERVTVEIA 72
          +G  +  + ++V I+
Sbjct: 64 DGTEIKEKTISVAIS 78

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

 Score = 50.3 bits (121), Expect = 1e-08
 Identities = 23/66 (34%), Positives = 40/66 (60%), Gaps = 1/66 (1%)

Query: 5  KVYIGGLPYG-VRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
          +V++G L    V + DLE+    YG+I  + L  G+GFV+F++  DA  AV   NG+ + 
Sbjct: 2  RVFVGNLNTDKVSKEDLEEIFSKYGKILGISLHKGYGFVQFDNEEDARAAVAGENGREIA 61

Query: 64 GERVTV 69
          G+++ +
Sbjct: 62 GQKLDI 67

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|240786 cd12340, RBD_RRM1_NPL3, RNA recognition motif 1 in yeast nucleolar protein 3 (Npl3p) and similar proteins

 Score = 49.7 bits (119), Expect = 2e-08
 Identities = 18/65 (27%), Positives = 31/65 (47%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
          ++Y+   P    E  + +    YG +++V + + F FVEFE    A  A   ++GK L  
Sbjct: 1  RLYVRPFPPDTSESAIREIFSPYGAVKEVKMISNFAFVEFESLESAIRAKDSVHGKVLNN 60

Query: 65 ERVTV 69
            + V
Sbjct: 61 NPLYV 65

This subfamily corresponds to the RRM1 of Npl3p, also termed mitochondrial targeting suppressor 1 protein, or nuclear polyadenylated RNA-binding protein 1. Npl3p is a major yeast RNA-binding protein that competes with 3'-end processing factors, such as Rna15, for binding to the nascent RNA, protecting the transcript from premature termination and coordinating transcription termination and the packaging of the fully processed transcript for export. It specifically recognizes a class of G/U-rich RNAs. Npl3p is a multi-domain protein containing two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), separated by a short linker and a C-terminal domain rich in glycine, arginine and serine residues. . Length = 67

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

 Score = 54.0 bits (130), Expect = 2e-08
 Identities = 45/190 (23%), Positives = 75/190 (39%), Gaps = 29/190 (15%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVI-------LKNGFGFVEFEDYRDADDAVYE 56
           T +Y+  L   V E  L +    +G I              GF FV FE + DA  AV E
Sbjct: 179 TNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEE 238

Query: 57  LNGKSL----LGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRS 112
           +NGK +     G+++ V  A+     +   RR +   +     +  G +           
Sbjct: 239 MNGKKIGLAKEGKKLYVGRAQKRAEREAELRRKFEELQQERKMKAQGVN----------- 287

Query: 113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALD 168
              L V+NL   V+ + L++   + GE+  A    D     R  G V F +  +  +A+ 
Sbjct: 288 ---LYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVT 344

Query: 169 KLDNAELNGR 178
           ++    L G+
Sbjct: 345 EMHGRMLGGK 354

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

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

 Score = 48.8 bits (117), Expect = 4e-08
 Identities = 27/78 (34%), Positives = 39/78 (50%), Gaps = 5/78 (6%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADA-----HKRHRNEGVVEFESSSDMKKALDK 169
            L V NL   V+ +DLKD   Q GEV  A         R R  G VE E++ +   A++K
Sbjct: 1   NLYVGNLPYNVTEEDLKDLFGQFGEVTSARVITDRETGRSRGFGFVEMETAEEANAAIEK 60

Query: 170 LDNAELNGRRIRLIEDKP 187
           L+  +  GR + + E +P
Sbjct: 61  LNGTDFGGRTLTVNEARP 78

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

>gnl|CDD|240853 cd12407, RRM_FOX1_like, RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins

 Score = 48.9 bits (117), Expect = 4e-08
 Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 6/74 (8%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-----GFGFVEFEDYRDADDAVYELN 58
          ++++  +P+  R+ DL +    +G I DV I+ N     GFGFV F +  DAD A  +L+
Sbjct: 2  RLHVSNIPFRFRDPDLRQMFGQFGPILDVEIIFNERGSKGFGFVTFANSADADRAREKLH 61

Query: 59 GKSLLGERVTVEIA 72
          G  + G ++ V  A
Sbjct: 62 GTVVEGRKIEVNNA 75

This subfamily corresponds to the RRM of several tissue-specific alternative splicing isoforms of vertebrate RNA binding protein Fox-1 homologs, which show high sequence similarity to the Caenorhabditis elegans feminizing locus on X (Fox-1) gene encoding Fox-1 protein. RNA binding protein Fox-1 homolog 1 (RBFOX1), also termed ataxin-2-binding protein 1 (A2BP1), or Fox-1 homolog A, or hexaribonucleotide-binding protein 1 (HRNBP1), is predominantly expressed in neurons, skeletal muscle and heart. It regulates alternative splicing of tissue-specific exons by binding to UGCAUG elements. Moreover, RBFOX1 binds to the C-terminus of ataxin-2 and forms an ataxin-2/A2BP1 complex involved in RNA processing. RNA binding protein fox-1 homolog 2 (RBFOX2), also termed Fox-1 homolog B, or hexaribonucleotide-binding protein 2 (HRNBP2), or RNA-binding motif protein 9 (RBM9), or repressor of tamoxifen transcriptional activity, is expressed in ovary, whole embryo, and human embryonic cell lines in addition to neurons and muscle. RBFOX2 activates splicing of neuron-specific exons through binding to downstream UGCAUG elements. RBFOX2 also functions as a repressor of tamoxifen activation of the estrogen receptor. RNA binding protein Fox-1 homolog 3 (RBFOX3 or NeuN or HRNBP3), also termed Fox-1 homolog C, is a nuclear RNA-binding protein that regulates alternative splicing of the RBFOX2 pre-mRNA, producing a message encoding a dominant negative form of the RBFOX2 protein. Its message is detected exclusively in post-mitotic regions of embryonic brain. Like RBFOX1, both RBFOX2 and RBFOX3 bind to the hexanucleotide UGCAUG elements and modulate brain and muscle-specific splicing of exon EIIIB of fibronectin, exon N1 of c-src, and calcitonin/CGRP. Members in this family also harbor one RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 76

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

 Score = 48.8 bits (117), Expect = 5e-08
 Identities = 25/80 (31%), Positives = 41/80 (51%), Gaps = 11/80 (13%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRD---VILKNG--------FGFVEFEDYRDADDA 53
          +++IG L   + E  L K    YG+I+    +  K+G        + FV FE   +A+ A
Sbjct: 1  RLWIGNLDSRLTEFHLLKLFSKYGKIKKFDFLFHKSGPLKGQPRGYCFVTFETKEEAEKA 60

Query: 54 VYELNGKSLLGERVTVEIAK 73
          +  LNGK+ LG+++ V  A 
Sbjct: 61 LKSLNGKTALGKKLVVRWAH 80

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

 Score = 48.8 bits (117), Expect = 5e-08
 Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 12/78 (15%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-----------KNGFGFVEFEDYRDADDA 53
          ++Y+  L + + E DL      +G +  + +            NGF FV F+D   A++A
Sbjct: 2  EIYVRNLDFKLDEDDLRGIFSKFGEVESIRIPKKQDEKQGRLNNGFAFVTFKDASSAENA 61

Query: 54 VYELNGKSLLGERVTVEI 71
          + +LNG  L G +++V +
Sbjct: 62 L-QLNGTELGGRKISVSL 78

This subfamily corresponds to the RRM3 of Prp24, also termed U4/U6 snRNA-associated-splicing factor PRP24 (U4/U6 snRNP), an RNA-binding protein with four well conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It facilitates U6 RNA base-pairing with U4 RNA during spliceosome assembly. Prp24 specifically binds free U6 RNA primarily with RRMs 1 and 2 and facilitates pairing of U6 RNA bases with U4 RNA bases. Additionally, it may also be involved in dissociation of the U4/U6 complex during spliceosome activation. . Length = 78

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

 Score = 48.8 bits (117), Expect = 7e-08
 Identities = 29/73 (39%), Positives = 37/73 (50%), Gaps = 8/73 (10%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYEL 57
          +YIGGLPY + E D+      YG I D+ L          GF F+ +ED R    AV  L
Sbjct: 12 IYIGGLPYELTEGDILCVFSQYGEIVDINLVRDKKTGKSKGFAFLAYEDQRSTILAVDNL 71

Query: 58 NGKSLLGERVTVE 70
          NG  LLG  + V+
Sbjct: 72 NGIKLLGRTIRVD 84

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

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

 Score = 48.4 bits (116), Expect = 7e-08
 Identities = 24/75 (32%), Positives = 39/75 (52%), Gaps = 7/75 (9%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYEL 57
          ++ +  LP+   E DL+K    +G + +V +       K GF FV+F    DA+ A+  +
Sbjct: 1  RLIVRNLPFKCTEADLKKLFSPFGFVWEVTIPRKPDGKKKGFAFVQFTSKADAEKAIKGV 60

Query: 58 NGKSLLGERVTVEIA 72
          NGK + G  V V+ A
Sbjct: 61 NGKKIKGRPVAVDWA 75

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

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

 Score = 48.0 bits (115), Expect = 1e-07
 Identities = 22/73 (30%), Positives = 41/73 (56%), Gaps = 8/73 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-KN-------GFGFVEFEDYRDADDAVYE 56
          K++IGGLP  + E  +++ ++ +G+++   L K+       G+ F E+ D    D A+  
Sbjct: 2  KIFIGGLPNYLSEDQVKELLESFGKLKAFNLVKDSATGLSKGYAFCEYLDPSVTDQAIAG 61

Query: 57 LNGKSLLGERVTV 69
          LNG  L  +++TV
Sbjct: 62 LNGMQLGDKKLTV 74

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

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

 Score = 47.8 bits (114), Expect = 1e-07
 Identities = 22/70 (31%), Positives = 41/70 (58%), Gaps = 1/70 (1%)

Query: 5  KVYIGGLP-YGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
          +++IG LP   V + DL +    YG +  ++LKN +GFV+F+      +A+    GK + 
Sbjct: 1  RLFIGNLPTKRVSKEDLFRIFSTYGELAQIVLKNAYGFVQFDSPESCANAINCEQGKMIR 60

Query: 64 GERVTVEIAK 73
          G ++ +E++K
Sbjct: 61 GRKLHLEVSK 70

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

 Score = 47.6 bits (113), Expect = 1e-07
 Identities = 22/67 (32%), Positives = 39/67 (58%), Gaps = 2/67 (2%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
          K+++G LP    E+++    + YG++ +  I+KN +GFV  +D   AD+A+  L+   L 
Sbjct: 2  KLFVGNLPPEATEQEIRSLFEQYGKVLECDIIKN-YGFVHMDDKTAADEAIRNLHHYKLH 60

Query: 64 GERVTVE 70
          G  + VE
Sbjct: 61 GVAINVE 67

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

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

 Score = 47.3 bits (113), Expect = 2e-07
 Identities = 25/75 (33%), Positives = 39/75 (52%), Gaps = 8/75 (10%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELN 58
          +++G L +   + DLE+F K  G + DV +         GFG VEF     A  A+ E +
Sbjct: 2  LFVGNLSWSAEQDDLEEFFKECGEVVDVRIAQDDDGRSKGFGHVEFATEEGAQKAL-EKS 60

Query: 59 GKSLLGERVTVEIAK 73
          G+ LLG  + V++A 
Sbjct: 61 GEELLGREIRVDLAT 75

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

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

 Score = 47.0 bits (112), Expect = 2e-07
 Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 9/78 (11%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
            K+++GGLP  V E DL K+   +G + +V++          GFGF+ FE   D+ D V
Sbjct: 2  TKKIFVGGLPPNVTETDLRKYFSQFGTVTEVVVMYDHEKKRPRGFGFITFES-EDSVDQV 60

Query: 55 YELNGKSLLGERVTVEIA 72
             +   + G++V V+ A
Sbjct: 61 VNEHFHDINGKKVEVKRA 78

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

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

 Score = 46.9 bits (112), Expect = 3e-07
 Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 10/77 (12%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRI-RDVILKN-------GFGFVEFEDYRDADDAVYEL 57
          +Y+ GLP  + +++LE     YGRI    IL +       G GF+ F+   +A+ A+  L
Sbjct: 3  LYVSGLPKTMTQQELEALFSPYGRIITSRILCDNVTGLSRGVGFIRFDKRIEAERAIKAL 62

Query: 58 NGKSLLG--ERVTVEIA 72
          NG    G  E +TV+ A
Sbjct: 63 NGTIPPGATEPITVKFA 79

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

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

 Score = 46.1 bits (110), Expect = 4e-07
 Identities = 15/35 (42%), Positives = 21/35 (60%)

Query: 147 KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
           ++HR    VEFE   D   A+D ++ +EL GR IR
Sbjct: 37  QKHRGFAFVEFEEPEDAAAAIDNMNESELFGRTIR 71

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|240912 cd12466, RRM2_AtRSp31_like, RNA recognition motif 2 in Arabidopsis thaliana arginine/serine-rich-splicing factor RSp31 and similar proteins from plants

 Score = 46.0 bits (109), Expect = 4e-07
 Identities = 21/61 (34%), Positives = 34/61 (55%)

Query: 12 PYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEI 71
          P   R RDLE+  + YG++ +V ++  F FV++E   DA  A+   N   +L   ++VE 
Sbjct: 9  PINTRTRDLERHFEPYGKLVNVRIRRNFAFVQYETQEDATKALESTNMSKVLDRVISVEY 68

Query: 72 A 72
          A
Sbjct: 69 A 69

This subgroup corresponds to the RRM2 in a family that represents a novel group of arginine/serine (RS) or serine/arginine (SR) splicing factors existing in plants, such as A. thaliana RSp31, RSp35, RSp41 and similar proteins. Like vertebrate RS splicing factors, these proteins function as plant splicing factors and play crucial roles in constitutive and alternative splicing in plants. They all contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), at their N-terminus, and an RS domain at their C-terminus. Length = 70

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

 Score = 46.2 bits (110), Expect = 4e-07
 Identities = 26/75 (34%), Positives = 35/75 (46%), Gaps = 8/75 (10%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAVYEL 57
          VY+  LP+ +   DL K    YG++  V I+K+       G  F+ F D  DA   V  L
Sbjct: 4  VYVSNLPFSLTNNDLHKIFSKYGKVVKVTIVKDKETRKSKGVAFILFLDREDAHKCVKAL 63

Query: 58 NGKSLLGERVTVEIA 72
          N K L G  +   IA
Sbjct: 64 NNKELFGRTLKCSIA 78

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

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

 Score = 46.0 bits (110), Expect = 4e-07
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 7/73 (9%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYE 56
          T VY+  L   + +  L++    YG+I    +         GFGFV FE++  A  AV E
Sbjct: 2  TNVYVKNLGEDMDDEKLKELFGKYGKITSAKVMKDDEGKSKGFGFVNFENHEAAQKAVEE 61

Query: 57 LNGKSLLGERVTV 69
          LNGK + G+++ V
Sbjct: 62 LNGKEVNGKKLYV 74

This subfamily corresponds to the RRM3 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in the regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is an ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammalian, such as ovary and testis. It may play an important role in germ cell development. Moreover, unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes the yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 80

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

 Score = 45.8 bits (109), Expect = 5e-07
 Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 2/66 (3%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNG--FGFVEFEDYRDADDAVYELNGKS 61
          T V++GGL   V E +L      +G I  V +  G   GFV+F     A+ A+ +L G  
Sbjct: 2  TTVFVGGLDPAVTEDELRSLFGPFGEIVYVKIPPGKGCGFVQFVHRAAAEAAIQQLQGTI 61

Query: 62 LLGERV 67
          + G R+
Sbjct: 62 IGGSRI 67

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

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

 Score = 46.1 bits (110), Expect = 5e-07
 Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 8/76 (10%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRD-VILKN-------GFGFVEFEDYRDADDAVYEL 57
          +++  LPY   +  LE+F    G I+   ++K+       GFG+V F    DA  A+ E 
Sbjct: 2  LFVRNLPYDTTDEQLEEFFSEVGPIKRCFVVKDKGSKKCRGFGYVTFALEEDAKRALEEK 61

Query: 58 NGKSLLGERVTVEIAK 73
                G ++ VE AK
Sbjct: 62 KKTKFGGRKIHVEFAK 77

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

>gnl|CDD|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 = 45.7 bits (109), Expect = 5e-07
 Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 8/75 (10%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAVYEL 57
          V++G +PY   E  L +     G +        RD     G+GF EFED   A  A+  L
Sbjct: 1  VFVGNIPYDATEEQLIEIFSEVGPVVSFRLVTDRDTGKPKGYGFCEFEDIETAASAIRNL 60

Query: 58 NGKSLLGERVTVEIA 72
          NG    G  + V+ A
Sbjct: 61 NGYEFNGRALRVDFA 75

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

>gnl|CDD|240689 cd12243, RRM1_MSSP, RNA recognition motif 1 in the c-myc gene single-strand binding proteins (MSSP) family

 Score = 45.3 bits (108), Expect = 7e-07
 Identities = 24/65 (36%), Positives = 36/65 (55%), Gaps = 8/65 (12%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRI---RDVILKN-----GFGFVEFEDYRDADDAVY 55
          T VYI GLP    + DLEK  + +G+I   + ++ K      G+GFV+F+    A  A+ 
Sbjct: 1  TNVYIRGLPPNTTDEDLEKLCQPFGKIISTKAILDKKTNKCKGYGFVDFDSPEAALKAIE 60

Query: 56 ELNGK 60
           LNG+
Sbjct: 61 GLNGR 65

This subfamily corresponds to the RRM1 of c-myc gene single-strand binding proteins (MSSP) family, including single-stranded DNA-binding protein MSSP-1 (also termed RBMS1 or SCR2) and MSSP-2 (also termed RBMS2 or SCR3). All MSSP family members contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), both of which are responsible for the specific DNA binding activity. Both, MSSP-1 and -2, have been identified as protein factors binding to a putative DNA replication origin/transcriptional enhancer sequence present upstream from the human c-myc gene in both single- and double-stranded forms. Thus, they have been implied in regulating DNA replication, transcription, apoptosis induction, and cell-cycle movement, via the interaction with c-MYC, the product of protooncogene c-myc. Moreover, the family includes a new member termed RNA-binding motif, single-stranded-interacting protein 3 (RBMS3), which is not a transcriptional regulator. RBMS3 binds with high affinity to A/U-rich stretches of RNA, and to A/T-rich DNA sequences, and functions as a regulator of cytoplasmic activity. In addition, a putative meiosis-specific RNA-binding protein termed sporulation-specific protein 5 (SPO5, or meiotic RNA-binding protein 1, or meiotically up-regulated gene 12 protein), encoded by Schizosaccharomyces pombe Spo5/Mug12 gene, is also included in this family. SPO5 is a novel meiosis I regulator that may function in the vicinity of the Mei2 dot. . Length = 71

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

 Score = 45.6 bits (108), Expect = 7e-07
 Identities = 27/78 (34%), Positives = 38/78 (48%), Gaps = 5/78 (6%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSSDMKKALDKL 170
           L V NL+  V+ +DL DF   V  + +A           R  G V F    D ++AL KL
Sbjct: 2   LFVRNLAFSVTQEDLTDFFSDVAPIKHAVVVTDPETGESRGYGFVTFAMLEDAQEALAKL 61

Query: 171 DNAELNGRRIRLIEDKPR 188
            N +L+GR +RL   + R
Sbjct: 62  KNKKLHGRILRLDIAERR 79

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

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

 Score = 44.8 bits (107), Expect = 7e-07
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 3/49 (6%)

Query: 27 YGRIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA 72
          +G +  + L   K GF FVEF     A+ AV  LNG    G  + V+ +
Sbjct: 8  FGNVEKIKLLKKKPGFAFVEFSTEEAAEKAVQYLNGVLFGGRPLRVDYS 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|240996 cd12552, RRM_Nop15p, RNA recognition motif in yeast ribosome biogenesis protein 15 (Nop15p) and similar proteins

 Score = 45.6 bits (108), Expect = 8e-07
 Identities = 20/76 (26%), Positives = 40/76 (52%), Gaps = 8/76 (10%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYEL 57
          +YIG LP+G  E++L+K+   +G +++V +           +GF++F +   A  A   +
Sbjct: 2  IYIGHLPHGFLEKELKKYFSQFGTVKNVRVARSKKTGNSKHYGFIQFLNPEVAAIAAKSM 61

Query: 58 NGKSLLGERVTVEIAK 73
          N   L+G+ + V +  
Sbjct: 62 NNYLLMGKVLQVHVLP 77

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

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

 Score = 45.1 bits (107), Expect = 1e-06
 Identities = 29/80 (36%), Positives = 40/80 (50%), Gaps = 21/80 (26%)

Query: 7  YIGGLPYGVRERDLEKFVKG--------------YGRIRDVILKNGFGFVEFEDYRDADD 52
          Y+G LPY V E D+++F +G               GR+R      GFG+ EFED      
Sbjct: 5  YLGNLPYDVTEEDIKEFFRGLNVSSVRLPREPGDPGRLR------GFGYAEFEDRDSLLQ 58

Query: 53 AVYELNGKSLLGERVTVEIA 72
          A+  LN +SL   R+ V+IA
Sbjct: 59 AL-SLNDESLKNRRIRVDIA 77

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

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

 Score = 48.0 bits (113), Expect = 2e-06
 Identities = 37/171 (21%), Positives = 66/171 (38%), Gaps = 7/171 (4%)

Query: 76  DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMR 135
              Q  G RGY         R     +  +       ++ L V NL   V+ +DL++  +
Sbjct: 80  MEEQNDGERGYTKEFEEELFRSSESPKSRQ--KSKEENNTLFVGNLPYDVTEEDLRELFK 137

Query: 136 QVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG 190
           + G V            + R    VEFES    +KA+++L+  EL GR +R+ + +P   
Sbjct: 138 KFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPASQ 197

Query: 191 GRGRSRSSSSRSRSKSRSRSRSSKSRSPRSRSKSGSPRKSKSKAKSVSRSP 241
            R    ++   S +K  SR ++       +      P K+  +  +     
Sbjct: 198 PRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKS 248

Length = 306

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

 Score = 44.3 bits (105), Expect = 2e-06
 Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 12/69 (17%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV-- 54
          K+++GGL     E D++K+   +G++ D +L          GFGFV FE     D     
Sbjct: 1  KIFVGGLSANTTEDDVKKYFSQFGKVEDAMLMFDKQTNRHRGFGFVTFESEDVVDKVCEI 60

Query: 55 --YELNGKS 61
            +E+N K 
Sbjct: 61 HFHEINNKM 69

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

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

 Score = 44.2 bits (105), Expect = 2e-06
 Identities = 24/68 (35%), Positives = 34/68 (50%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGE 65
          +Y+  LP    E  L +    YG +  V     + FV FE+  DA  A+ E+NGK L G 
Sbjct: 4  LYVRNLPLSTTEEQLRELFSEYGEVERVKKIKDYAFVHFEERDDAVKAMEEMNGKELEGS 63

Query: 66 RVTVEIAK 73
           + V +AK
Sbjct: 64 PIEVSLAK 71

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

>gnl|CDD|240719 cd12273, RRM1_NEFsp, RNA recognition motif 1 in vertebrate putative RNA exonuclease NEF-sp

 Score = 44.3 bits (105), Expect = 2e-06
 Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 4/69 (5%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL----KNGFGFVEFEDYRDADDAVYELNGKS 61
          VY G  P      D+++  +  G +R V +         F+ FE+   A  A+  LNG S
Sbjct: 2  VYAGPFPTSFCLSDVKRLFETCGPVRKVTMLSRTVQPHAFITFENLEAAQLAIETLNGAS 61

Query: 62 LLGERVTVE 70
          + G  + V+
Sbjct: 62 VDGNCIKVQ 70

This subfamily corresponds to the RRM1 of NEF-sp., including uncharacterized putative RNA exonuclease NEF-sp found in vertebrates. Although its cellular functions remains unclear, NEF-sp contains an exonuclease domain and two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), suggesting it may possess both exonuclease and RNA-binding activities. . Length = 71

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

 Score = 44.6 bits (105), Expect = 2e-06
 Identities = 26/79 (32%), Positives = 43/79 (54%), Gaps = 8/79 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVY 55
          T +++  +    R  DL +    YG I DV +          GF +++FED RDA+DA+Y
Sbjct: 1  TSLFVRNVADATRPEDLRREFGRYGPIVDVYVPLDFYTRRPRGFAYIQFEDVRDAEDALY 60

Query: 56 ELNGKSLLGERVTVEIAKG 74
           LN K + G ++ ++ A+G
Sbjct: 61 NLNRKWVCGRQIEIQFAQG 79

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

>gnl|CDD|240804 cd12358, RRM1_VICKZ, RNA recognition motif 1 in the VICKZ family proteins

 Score = 43.9 bits (104), Expect = 3e-06
 Identities = 26/66 (39%), Positives = 37/66 (56%), Gaps = 2/66 (3%)

Query: 7  YIGGLPYGVRERDLEK-FVKGYGRIRDVIL-KNGFGFVEFEDYRDADDAVYELNGKSLLG 64
          YIG L   V E DL + F +    +  V++ K G+ FV+  D   AD A+ +LNGK L G
Sbjct: 2  YIGNLSSDVNESDLRQLFEEHKIPVSSVLVKKGGYAFVDCPDQSWADKAIEKLNGKILQG 61

Query: 65 ERVTVE 70
          + + VE
Sbjct: 62 KVIEVE 67

Thid subfamily corresponds to the RRM1 of IGF2BPs (or IMPs) found in the VICKZ family that have been implicated in the post-transcriptional regulation of several different RNAs and in subcytoplasmic localization of mRNAs during embryogenesis. IGF2BPs are composed of two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and four hnRNP K homology (KH) domains. Length = 73

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

 Score = 43.7 bits (103), Expect = 3e-06
 Identities = 19/66 (28%), Positives = 32/66 (48%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
          K+++G +     + +L    + YG +    +   F FV       AD A+ ELNG+ L G
Sbjct: 2  KIFVGNVDEDTSQEELRALFEAYGAVLSCAVMRQFAFVHLRGEAAADRAIEELNGRELHG 61

Query: 65 ERVTVE 70
           ++ VE
Sbjct: 62 RKLVVE 67

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

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

 Score = 43.5 bits (103), Expect = 3e-06
 Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 8/76 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
           +++G L + V +  L+   + +G +    +          GFG+V+FE   DA  A+  
Sbjct: 1  TLFVGNLSWSVDDEWLKAEFEKFGTVVGARVITDRETGRSRGFGYVDFESPEDAKKAIEA 60

Query: 57 LNGKSLLGERVTVEIA 72
          ++GK L G  + V+ +
Sbjct: 61 MDGKELDGRPINVDFS 76

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

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

 Score = 44.1 bits (105), Expect = 3e-06
 Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 12/50 (24%)

Query: 23 FVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA 72
          FVKGY              +E+E  ++A  A+  LNGK LLG+ ++V+ A
Sbjct: 46 FVKGYA------------LIEYETKKEAQAAIEGLNGKELLGQTISVDWA 83

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

 Score = 43.4 bits (103), Expect = 4e-06
 Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 4/70 (5%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKL 170
           RLIV NL  + +  DLK      G V           + +    V+F S +D +KA+  +
Sbjct: 1   RLIVRNLPFKCTEADLKKLFSPFGFVWEVTIPRKPDGKKKGFAFVQFTSKADAEKAIKGV 60

Query: 171 DNAELNGRRI 180
           +  ++ GR +
Sbjct: 61  NGKKIKGRPV 70

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

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

 Score = 46.5 bits (109), Expect = 4e-06
 Identities = 33/103 (32%), Positives = 48/103 (46%), Gaps = 8/103 (7%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
             +++G LPY V E DL +  K +G ++ V L          GF FVEFE    A+ A+ 
Sbjct: 116 NTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIE 175

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGW 98
           ELNGK L G  + V+ A+   + +        +  A    RG 
Sbjct: 176 ELNGKELEGRPLRVQKAQPASQPRSELSNNLDASFAKKLSRGK 218

Length = 306

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

 Score = 43.4 bits (103), Expect = 4e-06
 Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 5/69 (7%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRD--VILKNG---FGFVEFEDYRDADDAVYELNGK 60
          +Y+G L   V E  L +     G I+   +I ++G   + FVE+ D+R A  A+  +NG+
Sbjct: 1  LYVGNLDRTVTEDLLAELFSQIGPIKSCKLIREHGNDPYAFVEYYDHRSAAAALQTMNGR 60

Query: 61 SLLGERVTV 69
           +LG+ + V
Sbjct: 61 LILGQEIKV 69

This subfamily corresponds to the RRM1 of nucleolysin TIA-1 isoform p40 (p40-TIA-1 or TIA-1) and nucleolysin TIA-1-related protein (TIAR), both of which are granule-associated RNA binding proteins involved in inducing apoptosis in cytotoxic lymphocyte (CTL) target cells. TIA-1 and TIAR share high sequence similarity. They are expressed in a wide variety of cell types. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis.TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. Both, TIA-1 and TIAR, bind specifically to poly(A) but not to poly(C) homopolymers. They are composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 and TIAR interact with RNAs containing short stretches of uridylates and their RRM2 can mediate the specific binding to uridylate-rich RNAs. The C-terminal auxiliary domain may be responsible for interacting with other proteins. In addition, TIA-1 and TIAR share a potential serine protease-cleavage site (Phe-Val-Arg) localized at the junction between their RNA binding domains and their C-terminal auxiliary domains. Length = 72

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

 Score = 43.4 bits (103), Expect = 4e-06
 Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 9/77 (11%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRD-VILKN-------GFGFVEFEDYRDADDAVY 55
          TK+++GGLPY   +  L K+   +G I + V++ +       G+GFV F+D   A+ A  
Sbjct: 1  TKIFVGGLPYHTTDDSLRKYFSQFGEIEEAVVITDRQTGKSRGYGFVTFKDKESAERACK 60

Query: 56 ELNGKSLLGERVTVEIA 72
          + N   + G +  V +A
Sbjct: 61 DPN-PIIDGRKANVNLA 76

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

>gnl|CDD|241014 cd12570, RRM5_MRD1, RNA recognition motif 5 in yeast multiple RNA-binding domain-containing protein 1 (MRD1) and similar proteins

 Score = 43.7 bits (103), Expect = 4e-06
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 7/76 (9%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYE 56
          TK+ +  LP+   ++D+      YG+++ V +         GF FVEF   ++A +A+  
Sbjct: 1  TKILVKNLPFEATKKDVRTLFSSYGQLKSVRVPKKFDQSARGFAFVEFSTAKEALNAMNA 60

Query: 57 LNGKSLLGERVTVEIA 72
          L    LLG R+ ++ A
Sbjct: 61 LKDTHLLGRRLVLQYA 76

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

>gnl|CDD|240785 cd12339, RRM2_SRSF1_4_like, RNA recognition motif 2 in serine/arginine-rich splicing factor SRSF1, SRSF4 and similar proteins

 Score = 43.0 bits (102), Expect = 5e-06
 Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 9/72 (12%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN------GFGFVEFEDYRDADDAVYELN 58
          +V + GLP G   +DL+ F +  G   DV   +      G G VEF    D + A+ +L+
Sbjct: 2  RVVVSGLPEGASWQDLKDFGRQAG---DVTYADVDRDQEGEGVVEFTSQEDMERALRKLD 58

Query: 59 GKSLLGERVTVE 70
          G    G RV VE
Sbjct: 59 GTEFRGRRVRVE 70

This subfamily corresponds to the RRM2 of several serine/arginine (SR) proteins that have been classified into two subgroups. The first subgroup consists of serine/arginine-rich splicing factor 4 (SRSF4 or SRp75 or SFRS4), serine/arginine-rich splicing factor 5 (SRSF5 or SRp40 or SFRS5 or HRS) and serine/arginine-rich splicing factor 6 (SRSF6 or SRp55). The second subgroup is composed of serine/arginine-rich splicing factor 1 (SRSF1 or ASF-1), serine/arginine-rich splicing factor 9 (SRSF9 or SRp30C) and plant pre-mRNA-splicing factor SF2 (SR1). These SR proteins are mainly involved in regulating constitutive and alternative pre-mRNA splicing. They also have been implicated in transcription, genomic stability, mRNA export and translation. All SR proteins in this family, except SRSF5, undergo nucleocytoplasmic shuttling, suggesting their widespread roles in gene expression. These SR proteins share a common domain architecture comprising 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. Both domains can directly contact with RNA. The RRMs appear to determine the binding specificity and the SR domain also mediates protein-protein interactions. In addition, this subfamily includes the yeast nucleolar protein 3 (Npl3p), also termed mitochondrial targeting suppressor 1 protein, or nuclear polyadenylated RNA-binding protein 1. It is a major yeast RNA-binding protein that competes with 3'-end processing factors, such as Rna15, for binding to the nascent RNA, protecting the transcript from premature termination and coordinating transcription termination and the packaging of the fully processed transcript for export. It specifically recognizes a class of G/U-rich RNAs. Npl3p is a multi-domain protein with two RRMs, separated by a short linker and a C-terminal domain rich in glycine, arginine and serine residues. . Length = 71

>gnl|CDD|240913 cd12467, RRM_Srp1p_like, RNA recognition motif 1 in fission yeast pre-mRNA-splicing factor Srp1p and similar proteins

 Score = 43.3 bits (102), Expect = 5e-06
 Identities = 25/77 (32%), Positives = 37/77 (48%), Gaps = 9/77 (11%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELN 58
          +Y+ G     R RDL    + YGR+    +          F FVE+E +RDA+DA  E++
Sbjct: 2  LYVTGFGAETRARDLAYEFERYGRLVRCDIPPPRTFQSRPFAFVEYESHRDAEDAYEEMH 61

Query: 59 GKSLLGERVT--VEIAK 73
          G+       T  V+ AK
Sbjct: 62 GRRFPDTGDTLHVQWAK 78

This subgroup corresponds to the RRM domain in Srp1p encoded by gene srp1 from fission yeast Schizosaccharomyces pombe. It plays a role in the pre-mRNA splicing process, but not essential for growth. Srp1p is closely related to the SR protein family found in metazoa. It contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a glycine hinge and a RS domain in the middle, and a C-terminal domain. Some family members also contain another RRM domain. Length = 78

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

 Score = 42.5 bits (100), Expect = 8e-06
 Identities = 18/68 (26%), Positives = 33/68 (48%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
           K+++G +       +L    + +GR+ +      + FV  E   +A  A+  LNGK + 
Sbjct: 1  WKIFVGNVSATCTSDELRGLFEEFGRVVECDKVKDYAFVHMEREEEALAAIEALNGKEVK 60

Query: 64 GERVTVEI 71
          G R+ VE+
Sbjct: 61 GRRINVEL 68

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

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

 Score = 42.2 bits (100), Expect = 9e-06
 Identities = 21/74 (28%), Positives = 32/74 (43%), Gaps = 9/74 (12%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGF----VEFEDYRDADDAVYEL-- 57
            V +  LP    E  + +F K  G IR+V +    G     +EFE     D+A+  L  
Sbjct: 1  LTVKVKNLPKDTTENKIRQFFKDCGEIREVKIVESEGGLVAVIEFETE---DEALAALTK 57

Query: 58 NGKSLLGERVTVEI 71
          + K L G  ++V  
Sbjct: 58 DHKRLGGNEISVSR 71

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

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

 Score = 46.0 bits (109), Expect = 9e-06
 Identities = 45/190 (23%), Positives = 79/190 (41%), Gaps = 34/190 (17%)

Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYEL 57
           V++  L    RERDL +F    G++RDV            G  +VEF D  ++      L
Sbjct: 92  VFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYD-VESVIKALAL 150

Query: 58  NGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLI 117
            G+ LLG  + V+ ++      E+ R    +   P                      +L 
Sbjct: 151 TGQMLLGRPIIVQSSQA-----EKNRAAKAATHQPGDIPN---------------FLKLY 190

Query: 118 VENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDN 172
           V NL   ++ Q+L+      G++     H+     R +  G ++F  + + K+AL+ ++ 
Sbjct: 191 VGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNG 250

Query: 173 AELNGRRIRL 182
            EL GR I++
Sbjct: 251 FELAGRPIKV 260

This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed. Length = 457

>gnl|CDD|240864 cd12418, RRM_Aly_REF_like, RNA recognition motif in the Aly/REF family

 Score = 42.2 bits (100), Expect = 1e-05
 Identities = 22/73 (30%), Positives = 40/73 (54%), Gaps = 4/73 (5%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEV--CYADAHKRHRNEGV--VEFESSSDMKKALDK 169
            RL V NL   V+ +DL++   +VGEV     +  +  R+EG   V FE   D ++A+ +
Sbjct: 1   TRLRVSNLHYDVTEEDLEELFGRVGEVKKVKINYDRSGRSEGTADVVFEKREDAERAIKQ 60

Query: 170 LDNAELNGRRIRL 182
            +   L+G+ +++
Sbjct: 61  FNGVLLDGQPMQV 73

This subfamily corresponds to the RRM of Aly/REF family which includes THO complex subunit 4 (THOC4, also termed Aly/REF), S6K1 Aly/REF-like target (SKAR, also termed PDIP3 or PDIP46) and similar proteins. THOC4 is an mRNA transporter protein with a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It is involved in RNA transportation from the nucleus, and was initially identified as a transcription coactivator of LEF-1 and AML-1 for the TCRalpha enhancer function. In addition, THOC4 specifically binds to rhesus (RH) promoter in erythroid, and might be a novel transcription cofactor for erythroid-specific genes. SKAR shows high sequence homology with THOC4 and possesses one RRM as well. SKAR is widely expressed and localizes to the nucleus. It may be a critical player in the function of S6K1 in cell and organism growth control by binding the activated, hyperphosphorylated form of S6K1 but not S6K2. Furthermore, SKAR functions as a protein partner of the p50 subunit of DNA polymerase delta. In addition, SKAR may have particular importance in pancreatic beta cell size determination and insulin secretion. . Length = 75

>gnl|CDD|240811 cd12365, RRM_RNPS1, RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins

 Score = 42.2 bits (100), Expect = 1e-05
 Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 8/73 (10%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAVYEL 57
          +++G L   V +  L++    YG +        R+V L  G+ +VEFE   DA+ A+  +
Sbjct: 1  LHVGKLTRNVNKDHLKEIFSNYGTVKDVDLPIDREVNLPRGYAYVEFESPEDAEKAIKHM 60

Query: 58 NGKSLLGERVTVE 70
          +G  + G+ VTVE
Sbjct: 61 DGGQIDGQEVTVE 73

This subfamily corresponds to the RRM of RNPS1 and its eukaryotic homologs. RNPS1, also termed RNA-binding protein prevalent during the S phase, or SR-related protein LDC2, was originally characterized as a general pre-mRNA splicing activator, which activates both constitutive and alternative splicing of pre-mRNA in vitro.It has been identified as a protein component of the splicing-dependent mRNP complex, or exon-exon junction complex (EJC), and is directly involved in mRNA surveillance. Furthermore, RNPS1 is a splicing regulator whose activator function is controlled in part by CK2 (casein kinase II) protein kinase phosphorylation. It can also function as a squamous-cell carcinoma antigen recognized by T cells-3 (SART3)-binding protein, and is involved in the regulation of mRNA splicing. RNPS1 contains an N-terminal serine-rich (S) domain, a central RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and the C-terminal arginine/serine/proline-rich (RS/P) domain. . Length = 73

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

 Score = 41.9 bits (99), Expect = 1e-05
 Identities = 21/58 (36%), Positives = 29/58 (50%), Gaps = 8/58 (13%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
          K+++GGL   V E DL ++   YG +  V +        K GF FV F+DY   D  V
Sbjct: 1  KLFVGGLKEDVTEEDLREYFSQYGNVESVEIVTDKETGKKRGFAFVTFDDYDPVDKIV 58

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

>gnl|CDD|240673 cd12227, RRM_SCAF4_SCAF8, RNA recognition motif in SR-related and CTD-associated factor 4 (SCAF4), SR-related and CTD-associated factor 8 (SCAF8) and similar proteins

 Score = 41.9 bits (99), Expect = 1e-05
 Identities = 24/73 (32%), Positives = 37/73 (50%), Gaps = 2/73 (2%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIR--DVILKNGFGFVEFEDYRDADDAVYELNGKS 61
          T ++IG L   V E DL+   + YG I+  D+I   G  +V  E  +DA  A+ +L    
Sbjct: 3  TTLWIGHLSKKVTEEDLKNLFEEYGEIQSIDMIPPRGCAYVCMETRQDAHRALQKLRNVK 62

Query: 62 LLGERVTVEIAKG 74
          L G+++ V  A  
Sbjct: 63 LAGKKIKVAWAPN 75

This subfamily corresponds to the RRM in a new class of SCAFs (SR-like CTD-associated factors), including SCAF4, SCAF8 and similar proteins. The biological role of SCAF4 remains unclear, but it shows high sequence similarity to SCAF8 (also termed CDC5L complex-associated protein 7, or RNA-binding motif protein 16, or CTD-binding SR-like protein RA8). SCAF8 is a nuclear matrix protein that interacts specifically with a highly serine-phosphorylated form of the carboxy-terminal domain (CTD) of the largest subunit of RNA polymerase II (pol II). The pol II CTD plays a role in coupling transcription and pre-mRNA processing. In addition, SCAF8 co-localizes primarily with transcription sites that are enriched in nuclear matrix fraction, which is known to contain proteins involved in pre-mRNA processing. Thus, SCAF8 may play a direct role in coupling with both, transcription and pre-mRNA processing, processes. SCAF8 and SCAF4 both contain a conserved N-terminal CTD-interacting domain (CID), an atypical RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNPs (ribonucleoprotein domain), and serine/arginine-rich motifs. Length = 77

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

 Score = 44.8 bits (106), Expect = 2e-05
 Identities = 48/231 (20%), Positives = 84/231 (36%), Gaps = 46/231 (19%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRI------RDVILKN-GFGFVEFEDYRDADDAVYE 56
             +++  L   V  + L      +G I       D   K+ G+GFV FE    A  A+ +
Sbjct: 89  GNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQK 148

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRL 116
           +NG  L  + V V                 G +            + +R   P +    L
Sbjct: 149 VNGMLLNDKEVYV-----------------GRFIK----------KHEREAAPLKKFTNL 181

Query: 117 IVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKLDN 172
            V+NL   V+   L++   + GE+  A    D   R R    V FE   D  KA+++++ 
Sbjct: 182 YVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNG 241

Query: 173 AELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKSRSPRSRSK 223
            ++   +    E K    GR + R+     R     R      +  + +++
Sbjct: 242 KKIGLAK----EGKKLYVGRAQKRA----EREAELRRKFEELQQERKMKAQ 284

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

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

 Score = 41.8 bits (99), Expect = 2e-05
 Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 8/60 (13%)

Query: 7  YIGGLPYGVRERDLEKFVKGYGRI------RDVILKN--GFGFVEFEDYRDADDAVYELN 58
          Y+G L   V E  L +     G +      RD+I +   G+ +V F++  DA+ A+  LN
Sbjct: 3  YVGDLHPDVTEAMLYEIFSPAGPVLSIRVCRDLITRRSLGYAYVNFQNPADAERALDTLN 62

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

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

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 7/69 (10%)

Query: 11 LPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLL 63
          LP G++E  L K  + +G I DV LK         FGFV ++   +A  A+   N   + 
Sbjct: 8  LPKGIKEDKLRKLFEAFGTITDVQLKYTKDGKFRKFGFVGYKTEEEAQKALKHFNNSFID 67

Query: 64 GERVTVEIA 72
            ++TVEI 
Sbjct: 68 TSKITVEIC 76

This subgroup corresponds to the RRM1 of RBM19, also termed RNA-binding domain-1 (RBD-1), a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. RBM19 has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 76

>gnl|CDD|240807 cd12361, RRM1_2_CELF1-6_like, RNA recognition motif 1 and 2 in CELF/Bruno-like family of RNA binding proteins and plant flowering time control protein FCA

 Score = 41.4 bits (98), Expect = 2e-05
 Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 8/64 (12%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAVYE 56
          K+++G LP    E D+    + YG I +V I+++       G  FV+F    +A  A+  
Sbjct: 1  KLFVGQLPKTATEEDVRALFEEYGNIEEVTIIRDKDTGQSKGCAFVKFSSREEAQKAIEA 60

Query: 57 LNGK 60
          L+GK
Sbjct: 61 LHGK 64

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

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

 Score = 41.1 bits (97), Expect = 2e-05
 Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 8/71 (11%)

Query: 7  YIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELN 58
          Y+G L + + E DL    + +G I  V L          G+GF++F D  DA  A+ +LN
Sbjct: 2  YVGNLHFNITEDDLRGIFEPFGEIEFVQLQRDPETGRSKGYGFIQFADAEDAKKALEQLN 61

Query: 59 GKSLLGERVTV 69
          G  L G  + V
Sbjct: 62 GFELAGRPIKV 72

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

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

 Score = 41.1 bits (97), Expect = 3e-05
 Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 9/75 (12%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEV------CYADAHKRHRNEGV--VEFESSSDMKK 165
             + V NL  ++   DL+    + GEV         D  +   N G   V F+ +S  + 
Sbjct: 1   REIYVRNLDFKLDEDDLRGIFSKFGEVESIRIPKKQDEKQGRLNNGFAFVTFKDASSAEN 60

Query: 166 ALDKLDNAELNGRRI 180
           AL +L+  EL GR+I
Sbjct: 61  AL-QLNGTELGGRKI 74

This subfamily corresponds to the RRM3 of Prp24, also termed U4/U6 snRNA-associated-splicing factor PRP24 (U4/U6 snRNP), an RNA-binding protein with four well conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It facilitates U6 RNA base-pairing with U4 RNA during spliceosome assembly. Prp24 specifically binds free U6 RNA primarily with RRMs 1 and 2 and facilitates pairing of U6 RNA bases with U4 RNA bases. Additionally, it may also be involved in dissociation of the U4/U6 complex during spliceosome activation. . Length = 78

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

 Score = 41.1 bits (97), Expect = 3e-05
 Identities = 27/72 (37%), Positives = 36/72 (50%), Gaps = 5/72 (6%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKL 170
            L V NLS      DL++F ++ GEV       D   R +  G VEF +    +KAL+K 
Sbjct: 1   TLFVGNLSWSAEQDDLEEFFKECGEVVDVRIAQDDDGRSKGFGHVEFATEEGAQKALEK- 59

Query: 171 DNAELNGRRIRL 182
              EL GR IR+
Sbjct: 60  SGEELLGREIRV 71

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

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

 Score = 41.1 bits (97), Expect = 3e-05
 Identities = 26/72 (36%), Positives = 38/72 (52%), Gaps = 9/72 (12%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KN-----GFGFVEFEDYRDADDAVYEL 57
          V++  L   VRERDL +F    G++RDV +   +N     G  +VEF D      A+  L
Sbjct: 2  VFVMQLSLKVRERDLYEFFSKAGKVRDVRIIRDRNSRRSKGVAYVEFYDEESVPLAL-GL 60

Query: 58 NGKSLLGERVTV 69
           G+ LLG+ + V
Sbjct: 61 TGQRLLGQPIMV 72

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

>gnl|CDD|240669 cd12223, RRM_SR140, RNA recognition motif (RRM) in U2-associated protein SR140 and similar proteins

 Score = 41.5 bits (98), Expect = 3e-05
 Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 8/75 (10%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVC--------YADAHKRHRNEGVVEFESSSDMKKAL 167
           L V NL+ +V+ + L     + G +           +  +R+RN G V F + +D ++AL
Sbjct: 4   LYVGNLNPKVTEEVLCQEFGRFGPLASVKIMWPRTEEERRRNRNCGFVAFMNRADAERAL 63

Query: 168 DKLDNAELNGRRIRL 182
           D+LD  ++ G  ++L
Sbjct: 64  DELDGKDVMGYELKL 78

This subgroup corresponds to the RRM of SR140 (also termed U2 snRNP-associated SURP motif-containing protein orU2SURP, or 140 kDa Ser/Arg-rich domain protein) which is a putative splicing factor mainly found in higher eukaryotes. Although it is initially identified as one of the 17S U2 snRNP-associated proteins, the molecular and physiological function of SR140 remains unclear. SR140 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a SWAP/SURP domain that is found in a number of pre-mRNA splicing factors in the middle region, and a C-terminal arginine/serine-rich domain (RS domain). Length = 84

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

 Score = 41.0 bits (97), Expect = 3e-05
 Identities = 20/74 (27%), Positives = 31/74 (41%), Gaps = 11/74 (14%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYG-RIRDVILKN-------GFGFVEFEDYRDADDAVYEL 57
          V + GLP+   E D+  F  G       + +         G  +VEF    DA  A+ + 
Sbjct: 2  VRLRGLPFSATEEDIRDFFSGLDIPPDGIHIVYDDDGRPTGEAYVEFASPEDARRALRKH 61

Query: 58 NGKSLLGERVTVEI 71
          N K  +G R  +E+
Sbjct: 62 NNK--MGGR-YIEV 72

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

>gnl|CDD|241133 cd12689, RRM1_hnRNPL_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein L (hnRNP-L) and similar proteins

 Score = 41.2 bits (97), Expect = 3e-05
 Identities = 21/52 (40%), Positives = 27/52 (51%), Gaps = 2/52 (3%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVY 55
          V++ GLP GV E DL + +  +G I  V +  K     VEFED  DA   V 
Sbjct: 5  VHVRGLPDGVTEADLVEALSEFGPISYVTMMPKKRQALVEFEDISDAKACVN 56

This subfamily corresponds to the RRM1 of heterogeneous nuclear ribonucleoprotein L (hnRNP-L), heterogeneous nuclear ribonucleoprotein L-like (hnRNP-LL), and similar proteins. hnRNP-L is a higher eukaryotic specific subunit of human KMT3a (also known as HYPB or hSet2) complex required for histone H3 Lys-36 trimethylation activity. It plays both, nuclear and cytoplasmic, roles in mRNA export of intronless genes, IRES-mediated translation, mRNA stability, and splicing. hnRNP-LL plays a critical and unique role in the signal-induced regulation of CD45 and acts as a global regulator of alternative splicing in activated T cells. It is closely related in domain structure and sequence to hnRNP-L, which contains three RNA-recognition motifs (RRMs), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 80

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

 Score = 40.8 bits (96), Expect = 4e-05
 Identities = 27/73 (36%), Positives = 35/73 (47%), Gaps = 5/73 (6%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGE-----VCYADAHKRHRNEGVVEFESSSDMKKALDK 169
            L V NLS  V  + LK    + G      V       R R  G V+FES  D KKA++ 
Sbjct: 1   TLFVGNLSWSVDDEWLKAEFEKFGTVVGARVITDRETGRSRGFGYVDFESPEDAKKAIEA 60

Query: 170 LDNAELNGRRIRL 182
           +D  EL+GR I +
Sbjct: 61  MDGKELDGRPINV 73

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

>gnl|CDD|240851 cd12405, RRM3_NCL, RNA recognition motif 3 in vertebrate nucleolin

 Score = 40.7 bits (95), Expect = 4e-05
 Identities = 24/67 (35%), Positives = 36/67 (53%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL 175
           L+V NLS   S   L++   +   +     + R +    VEFES+ D K+AL+  +N E+
Sbjct: 4   LVVNNLSYSASEDSLQEVFEKATSIRIPQNNGRPKGYAFVEFESAEDAKEALNSCNNTEI 63

Query: 176 NGRRIRL 182
            GR IRL
Sbjct: 64  EGRSIRL 70

This subfamily corresponds to the RRM3 of ubiquitously expressed protein nucleolin, also termed protein C23, is a multifunctional major nucleolar phosphoprotein that has been implicated in various metabolic processes, such as ribosome biogenesis, cytokinesis, nucleogenesis, cell proliferation and growth, cytoplasmic-nucleolar transport of ribosomal components, transcriptional repression, replication, signal transduction, inducing chromatin decondensation, etc. Nucleolin exhibits intrinsic self-cleaving, DNA helicase, RNA helicase and DNA-dependent ATPase activities. It can be phosphorylated by many protein kinases, such as the major mitotic kinase Cdc2, casein kinase 2 (CK2), and protein kinase C-zeta. Nucleolin shares similar domain architecture with gar2 from Schizosaccharomyces pombe and NSR1 from Saccharomyces cerevisiae. The highly phosphorylated N-terminal domain of nucleolin is made up of highly acidic regions separated from each other by basic sequences, and contains multiple phosphorylation sites. The central domain of nucleolin contains four closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which suggests that nucleolin is potentially able to interact with multiple RNA targets. The C-terminal RGG (or GAR) domain of nucleolin is rich in glycine, arginine and phenylalanine residues, and contains high levels of NG,NG-dimethylarginines. . Length = 72

>gnl|CDD|240670 cd12224, RRM_RBM22, RNA recognition motif (RRM) found in Pre-mRNA-splicing factor RBM22 and similar proteins

 Score = 40.7 bits (96), Expect = 4e-05
 Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 3/69 (4%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRD--VILKNGFGFVEFEDYRDADDAVYELNGKS 61
          T +Y+GGL   V E+DL      +G IR   V+ +    FV F     A+ A   L  K 
Sbjct: 2  TTLYVGGLGERVTEKDLRDHFYQFGEIRSITVVPRQQCAFVTFTTREAAEKAAERLFNKL 61

Query: 62 LL-GERVTV 69
          ++ G R+ +
Sbjct: 62 IINGRRLKL 70

This subgroup corresponds to the RRM of RBM22 (also known as RNA-binding motif protein 22, or Zinc finger CCCH domain-containing protein 16), a newly discovered RNA-binding motif protein which belongs to the SLT11 gene family. SLT11 gene encoding protein (Slt11p) is a splicing factor in yeast, which is required for spliceosome assembly. Slt11p has two distinct biochemical properties: RNA-annealing and RNA-binding activities. RBM22 is the homolog of SLT11 in vertebrate. It has been reported to be involved in pre-splicesome assembly and to interact with the Ca2+-signaling protein ALG-2. It also plays an important role in embryogenesis. RBM22 contains a conserved RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a zinc finger of the unusual type C-x8-C-x5-C-x3-H, and a C-terminus that is unusually rich in the amino acids Gly and Pro, including sequences of tetraprolines. Length = 74

>gnl|CDD|241220 cd12776, RRM2_HuC, RNA recognition motif 2 in vertebrate Hu-antigen C (HuC)

 Score = 40.8 bits (95), Expect = 4e-05
 Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 10/77 (12%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRI---RDVI-----LKNGFGFVEFEDYRDADDAVYEL 57
          +Y+ GLP  + ++++E+    YGRI   R ++     +  G GF+ F+   +A++A+  L
Sbjct: 4  LYVSGLPKTMSQKEMEQLFSQYGRIITSRILVDQVTGISRGVGFIRFDKRIEAEEAIKGL 63

Query: 58 NGKSLLG--ERVTVEIA 72
          NG+  LG  E +TV+ A
Sbjct: 64 NGQKPLGAAEPITVKFA 80

This subgroup corresponds to the RRM2 of HuC, also termed ELAV-like protein 3 (ELAV-3), or paraneoplastic cerebellar degeneration-associated antigen, or paraneoplastic limbic encephalitis antigen 21 (PLE21), one of the neuronal members of the Hu family. The neuronal Hu proteins play important roles in neuronal differentiation, plasticity and memory. Like other Hu proteins, HuC 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 AU-rich RNA element (ARE). The AU-rich element binding of HuC can be inhibited by flavonoids. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 81

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

 Score = 40.8 bits (96), Expect = 4e-05
 Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 8/68 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
          ++++  LPY  +E DLEK    +G + +V +          GF +V F D  DA  A  E
Sbjct: 4  RLFVRNLPYSCKEDDLEKLFSKFGELSEVHVAIDKKSGKSKGFAYVLFLDPEDAVKAYKE 63

Query: 57 LNGKSLLG 64
          L+GK   G
Sbjct: 64 LDGKVFQG 71

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

>gnl|CDD|240757 cd12311, RRM_SRSF2_SRSF8, RNA recognition motif in serine/arginine-rich splicing factor SRSF2, SRSF8 and similar proteins

 Score = 40.4 bits (95), Expect = 4e-05
 Identities = 24/70 (34%), Positives = 34/70 (48%), Gaps = 8/70 (11%)

Query: 8  IGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNG 59
          +  L Y     DL +  + YG + DV +          GF FV F D RDA+DA+  ++G
Sbjct: 3  VDNLTYRTTPDDLRRVFEKYGEVGDVYIPRDRYTRESRGFAFVRFYDKRDAEDAMDAMDG 62

Query: 60 KSLLGERVTV 69
          K L G  + V
Sbjct: 63 KELDGRELRV 72

This subfamily corresponds to the RRM of SRSF2 and SRSF8. SRSF2, also termed protein PR264, or splicing component, 35 kDa (splicing factor SC35 or SC-35), is a prototypical SR protein that plays important roles in the alternative splicing of pre-mRNA. It is also involved in transcription elongation by directly or indirectly mediating the recruitment of elongation factors to the C-terminal domain of polymerase II. SRSF2 is exclusively localized in the nucleus and is restricted to nuclear processes. It contains a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a C-terminal RS domain rich in serine-arginine dipeptides. The RRM is responsible for the specific recognition of 5'-SSNG-3' (S=C/G) RNA. In the regulation of alternative splicing events, it specifically binds to cis-regulatory elements on the pre-mRNA. The RS domain modulates SRSF2 activity through phosphorylation, directly contacts RNA, and promotes protein-protein interactions with the spliceosome. SRSF8, also termed SRP46 or SFRS2B, is a novel mammalian SR splicing factor encoded by a PR264/SC35 functional retropseudogene. SRSF8 is localized in the nucleus and does not display the same activity as PR264/SC35. It functions as an essential splicing factor in complementing a HeLa cell S100 extract deficient in SR proteins. Like SRSF2, SRSF8 contains a single N-terminal RRM and a C-terminal RS domain. . Length = 73

>gnl|CDD|241023 cd12579, RRM2_hnRNPA0, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A0 (hnRNP A0) and similar proteins

 Score = 40.7 bits (95), Expect = 4e-05
 Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
          K+++GGL   V E DL +    +G +    +        K GFGFV F+++  AD A   
Sbjct: 1  KLFVGGLKGDVGEGDLTEHFSQFGPVEKAEVIADKQTGKKRGFGFVYFQNHDSADKAAV- 59

Query: 57 LNGKSLLGERVTVEIA 72
          +    + G RV V+ A
Sbjct: 60 VKFHPINGHRVEVKKA 75

This subgroup corresponds to the RRM2 of hnRNP A0, a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. It has been identified as the substrate for MAPKAP-K2 and may be involved in the lipopolysaccharide (LPS)-induced post-transcriptional regulation of tumor necrosis factor-alpha (TNF-alpha), cyclooxygenase 2 (COX-2) and macrophage inflammatory protein 2 (MIP-2). hnRNP A0 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 80

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

 Score = 40.7 bits (95), Expect = 5e-05
 Identities = 24/79 (30%), Positives = 43/79 (54%), Gaps = 8/79 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVY 55
          + +++  +    R  DL +    YG I DV +          GF +V+FED RDA+DA++
Sbjct: 1  SSLFVRNIADDTRSEDLRREFGRYGPIVDVYVPLDFYTRRPRGFAYVQFEDVRDAEDALH 60

Query: 56 ELNGKSLLGERVTVEIAKG 74
           L+ K + G ++ ++ A+G
Sbjct: 61 NLDRKWICGRQIEIQFAQG 79

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

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

 Score = 40.3 bits (95), Expect = 5e-05
 Identities = 21/76 (27%), Positives = 39/76 (51%), Gaps = 7/76 (9%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-KN------GFGFVEFEDYRDADDAVYE 56
          TK+ +  +P+   +++L +    +G+++ V L K       GF FVEF   ++A +A+  
Sbjct: 1  TKLIVRNVPFEATKKELRELFSPFGQVKSVRLPKKFDGSHRGFAFVEFVTKQEAQNAMEA 60

Query: 57 LNGKSLLGERVTVEIA 72
          L    L G  + +E A
Sbjct: 61 LKSTHLYGRHLVLEYA 76

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

>gnl|CDD|240781 cd12335, RRM2_SF3B4, RNA recognition motif 2 in splicing factor 3B subunit 4 (SF3B4) and similar proteins

 Score = 40.4 bits (95), Expect = 5e-05
 Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 9/79 (11%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRI-------RDVILKN--GFGFVEFEDYRDADDA 53
          G  ++IG L   V E+ L      +G I       RD    N  GF F+ ++ +  +D A
Sbjct: 1  GANLFIGNLDPEVDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGFAFISYDSFEASDAA 60

Query: 54 VYELNGKSLLGERVTVEIA 72
          +  +NG+ L    +TV  A
Sbjct: 61 IEAMNGQYLCNRPITVSYA 79

This subfamily corresponds to the RRM2 of SF3B4, also termed pre-mRNA-splicing factor SF3b 49 kDa (SF3b50), or spliceosome-associated protein 49 (SAP 49). SF3B4 is a component of the multiprotein complex splicing factor 3b (SF3B), an integral part of the U2 small nuclear ribonucleoprotein (snRNP) and the U11/U12 di-snRNP. SF3B is essential for the accurate excision of introns from pre-messenger RNA, and is involved in the recognition of the pre-mRNA's branch site within the major and minor spliceosomes. SF3B4 functions to tether U2 snRNP with pre-mRNA at the branch site during spliceosome assembly. It is an evolutionarily highly conserved protein with orthologs across diverse species. SF3B4 contains two closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It binds directly to pre-mRNA and also interacts directly and highly specifically with another SF3B subunit called SAP 145. . Length = 83

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

 Score = 41.9 bits (98), Expect = 6e-05
 Identities = 26/80 (32%), Positives = 39/80 (48%), Gaps = 8/80 (10%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADD 52
           ++ TK++IGGL +G  +  L      +G + D  +          GFGFV F D   A  
Sbjct: 32  LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATA 91

Query: 53  AVYELNGKSLLGERVTVEIA 72
           A+ E++GK L G  + V  A
Sbjct: 92  AISEMDGKELNGRHIRVNPA 111

Length = 144

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

 Score = 40.0 bits (94), Expect = 6e-05
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
          K+++GGLP  V E + +++   +G++ D  L          GFGFV F+    A + V+ 
Sbjct: 1  KIFVGGLPPDVTEEEFKEYFSQFGKVVDAQLMQDHDTGRSRGFGFVTFDS-ESAVERVFS 59

Query: 57 LNGKSLLGERVTVEIA 72
               L G++V V+ A
Sbjct: 60 AGMLELGGKQVEVKRA 75

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

>gnl|CDD|233516 TIGR01661, ELAV_HUD_SF, ELAV/HuD family splicing factor

 Score = 43.4 bits (102), Expect = 6e-05
 Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 10/80 (12%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRI-RDVILKN-------GFGFVEFEDYRDADDAV 54
           G  +Y+ GLP  + + +LE     +G+I    IL +       G GF+ F+   +AD A+
Sbjct: 89  GANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAI 148

Query: 55  YELNGKSLLG--ERVTVEIA 72
             LNG +  G  E +TV+ A
Sbjct: 149 KTLNGTTPSGCTEPITVKFA 168

This model describes the ELAV/HuD subfamily of splicing factors found in metazoa. HuD stands for the human paraneoplastic encephalomyelitis antigen D of which there are 4 variants in human. ELAV stnds for the Drosophila Embryonic lethal abnormal visual protein. ELAV-like splicing factors are also known in human as HuB (ELAV-like protein 2), HuC (ELAV-like protein 3, Paraneoplastic cerebellar degeneration-associated antigen) and HuR (ELAV-like protein 1). These genes are most closely related to the sex-lethal subfamily of splicing factors found in Dipteran insects (TIGR01659). These proteins contain 3 RNA-recognition motifs (rrm: pfam00076). Length = 352

>gnl|CDD|241105 cd12661, RRM3_hnRNPM, RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein M (hnRNP M)

 Score = 40.3 bits (94), Expect = 6e-05
 Identities = 25/75 (33%), Positives = 40/75 (53%), Gaps = 3/75 (4%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYAD---AHKRHRNEGVVEFESSSDMKKALDKLD 171
           ++ V NL    +W+ LKD   + G V YAD    + + +  GVV FES    ++A   ++
Sbjct: 1   QIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVRFESPEVAERACRMMN 60

Query: 172 NAELNGRRIRLIEDK 186
             +LNGR I +  D+
Sbjct: 61  GYKLNGREIDVRIDR 75

This subgroup corresponds to the RRM3 of hnRNP M, a pre-mRNA binding protein that may play an important role in the pre-mRNA processing. It also preferentially binds to poly(G) and poly(U) RNA homopolymers. Moreover, hnRNP M is able to interact with early spliceosomes, further influencing splicing patterns of specific pre-mRNAs. hnRNP M functions as the receptor of carcinoembryonic antigen (CEA) that contains the penta-peptide sequence PELPK signaling motif. In addition, hnRNP M and another splicing factor Nova-1 work together as dopamine D2 receptor (D2R) pre-mRNA-binding proteins. They regulate alternative splicing of D2R pre-mRNA in an antagonistic manner. hnRNP M contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an unusual hexapeptide-repeat region rich in methionine and arginine residues (MR repeat motif). . Length = 77

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

 Score = 39.9 bits (94), Expect = 7e-05
 Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 11/69 (15%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------GFGFVEFEDYRDADDAV--- 54
          ++++GG+P    E +L  F   +G ++DV +         G+GFV FE   DA+  +   
Sbjct: 4  RIFVGGIPPDTTEEELRDFFSRFGSVKDVKIITDRAGVSKGYGFVTFETQEDAEKILAMG 63

Query: 55 -YELNGKSL 62
               GK L
Sbjct: 64 NLNFRGKKL 72

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

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

 Score = 40.0 bits (94), Expect = 7e-05
 Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 8/70 (11%)

Query: 11 LPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSL 62
          LP  + + +L    +  G I    +          G+GFV++ D  DA  A+  LNG  +
Sbjct: 8  LPQDMTQEELRSLFEAIGPIESCKIVRDRITGQSLGYGFVDYVDENDAQKAINTLNGFEI 67

Query: 63 LGERVTVEIA 72
            +R+ V  A
Sbjct: 68 RNKRLKVSYA 77

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

 Score = 40.0 bits (93), Expect = 8e-05
 Identities = 22/70 (31%), Positives = 39/70 (55%), Gaps = 1/70 (1%)

Query: 4  TKVYIGGLPYG-VRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL 62
          ++V+IG L    V++ D+E     YGR+    +  G+ FV++ + R A  AV   NG+ L
Sbjct: 2  SRVFIGNLNTAVVKKSDVETIFSKYGRVVGCSVHKGYAFVQYSNERHARGAVIGENGRVL 61

Query: 63 LGERVTVEIA 72
           G+ + + +A
Sbjct: 62 AGQTLDINMA 71

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 = 39.6 bits (92), Expect = 8e-05
 Identities = 21/70 (30%), Positives = 40/70 (57%), Gaps = 1/70 (1%)

Query: 4  TKVYIGGL-PYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL 62
          ++V+IG L    V++ D+E     YG+I    +  GF FV++ + R+A  AV   +G+ +
Sbjct: 2  SRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMI 61

Query: 63 LGERVTVEIA 72
           G+ + + +A
Sbjct: 62 AGQVLDINLA 71

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

 Score = 39.5 bits (93), Expect = 9e-05
 Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 5/72 (6%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKL 170
           L V NL   ++  DL+      GE+ +    +     R +  G ++F  + D KKAL++L
Sbjct: 1   LYVGNLHFNITEDDLRGIFEPFGEIEFVQLQRDPETGRSKGYGFIQFADAEDAKKALEQL 60

Query: 171 DNAELNGRRIRL 182
           +  EL GR I++
Sbjct: 61  NGFELAGRPIKV 72

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

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

 Score = 39.9 bits (94), Expect = 9e-05
 Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 16/85 (18%)

Query: 7  YIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAVYELN 58
          ++  L Y   E  L +  + YG I+ + ++++       G+ F+EFE  RD   A    +
Sbjct: 5  FVARLNYDTTESKLRREFEEYGPIKRIRLVRDKKTGKPRGYAFIEFEHERDMKAAYKYAD 64

Query: 59 GKSLLGERVTVEIAKGIDRSQERGR 83
          GK + G RV V++        ERGR
Sbjct: 65 GKKIDGRRVLVDV--------ERGR 81

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

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

 Score = 38.7 bits (91), Expect = 1e-04
 Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 3/67 (4%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAE 174
           +L V NL    + ++L+    + G V   D  K   N G V  E   D + A+  L+  E
Sbjct: 1   KLFVGNLPDATTSEELRALFEKYGTVTECDVVK---NYGFVHMEEEEDAEDAIKALNGYE 57

Query: 175 LNGRRIR 181
             G+RI 
Sbjct: 58  FMGKRIN 64

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

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

 Score = 38.3 bits (90), Expect = 1e-04
 Identities = 10/36 (27%), Positives = 17/36 (47%)

Query: 147 KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
           K+      VEF +    +KA+  L+     GR +R+
Sbjct: 18  KKKPGFAFVEFSTEEAAEKAVQYLNGVLFGGRPLRV 53

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

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 26/68 (38%), Positives = 34/68 (50%), Gaps = 10/68 (14%)

Query: 6  VYIGGLPYGVRERDL-EKFVKGYGRIRDV-ILK-------NGFGFVEFEDYRDADDAVYE 56
          VY+G L   V E  L E F++  G + +V I K        G+GFVEF    DAD A+  
Sbjct: 1  VYVGNLDEKVTEELLWELFIQA-GPVVNVHIPKDRVTQAHQGYGFVEFLSEEDADYAIKI 59

Query: 57 LNGKSLLG 64
          +N   L G
Sbjct: 60 MNMIKLYG 67

This subfamily corresponds to the RRM1 of SF3B4, also termed pre-mRNA-splicing factor SF3b 49 kDa (SF3b50), or spliceosome-associated protein 49 (SAP 49). SF3B4 a component of the multiprotein complex splicing factor 3b (SF3B), an integral part of the U2 small nuclear ribonucleoprotein (snRNP) and the U11/U12 di-snRNP. SF3B is essential for the accurate excision of introns from pre-messenger RNA, and is involved in the recognition of the pre-mRNA's branch site within the major and minor spliceosomes. SF3B4 functions to tether U2 snRNP with pre-mRNA at the branch site during spliceosome assembly. It is an evolutionarily highly conserved protein with orthologs across diverse species. SF3B4 contains two closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It binds directly to pre-mRNA and also interacts directly and highly specifically with another SF3B subunit called SAP 145. . Length = 74

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

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 8/77 (10%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVY 55
          G +V++G +P  + E +L    +  G I ++ L         G+ FV + +   A  AV 
Sbjct: 1  GCEVFVGKIPRDLFEDELVPLFEKAGPIYELRLMMDFSGLNRGYAFVTYTNKEAAQRAVK 60

Query: 56 ELNGKSL-LGERVTVEI 71
          +L+   +  G+R+ V I
Sbjct: 61 QLHNYEIRPGKRLGVCI 77

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

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

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 23/71 (32%), Positives = 38/71 (53%), Gaps = 11/71 (15%)

Query: 6  VYIGGLPYGVRERDL-EKFVKGYGRIRDVIL---KN-----GFGFVEFEDYRDADDAVYE 56
          +Y+G L +   E  + E F +  G I+ +I+   +      GF FVE+    DA++AV  
Sbjct: 1  LYVGNLSFYTTEEQIYELFSRC-GDIKRIIMGLDRFTKTPCGFCFVEYYTREDAENAVKY 59

Query: 57 LNGKSLLGERV 67
          LNG + L +R+
Sbjct: 60 LNG-TKLDDRI 69

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

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

 Score = 39.1 bits (92), Expect = 1e-04
 Identities = 24/70 (34%), Positives = 35/70 (50%), Gaps = 9/70 (12%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL-KN-------GFGFVEFEDYRDADDAVYEL 57
          VYIG LP+G  E +L K+   +G +  + L ++       G+ FVEFE    A      +
Sbjct: 2  VYIGHLPHGFYEPELRKYFSQFGTVTRLRLSRSKKTGKSKGYAFVEFESPEVAKIVAETM 61

Query: 58 NGKSLLGERV 67
          N   LL ER+
Sbjct: 62 NN-YLLFERL 70

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

>gnl|CDD|240939 cd12495, RRM3_hnRNPQ, RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)

 Score = 39.2 bits (91), Expect = 1e-04
 Identities = 21/68 (30%), Positives = 35/68 (51%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGE 65
          +++  L   V E  LEK    +G++  V     + F+ F++   A  A+ E+NGK L GE
Sbjct: 4  LFVRNLANTVTEEILEKAFGQFGKLERVKKLKDYAFIHFDERDGAVKAMEEMNGKELEGE 63

Query: 66 RVTVEIAK 73
           + +  AK
Sbjct: 64 NIEIVFAK 71

This subgroup corresponds to the RRM3 of hnRNP Q, also termed glycine- and tyrosine-rich RNA-binding protein (GRY-RBP), or NS1-associated protein 1 (NASP1), or synaptotagmin-binding, cytoplasmic RNA-interacting protein (SYNCRIP). It is a ubiquitously expressed nuclear RNA-binding protein identified as a component of the spliceosome complex, as well as a component of the apobec-1 editosome. As an alternatively spliced version of NSAP, it acts as an interaction partner of a multifunctional protein required for viral replication, and is implicated in the regulation of specific mRNA transport. hnRNP Q has also been identified as SYNCRIP that is a dual functional protein participating in both viral RNA replication and translation. As a synaptotagmin-binding protein, hnRNP Q plays a putative role in organelle-based mRNA transport along the cytoskeleton. Moreover, hnRNP Q has been found in protein complexes involved in translationally coupled mRNA turnover and mRNA splicing. It functions as a wild-type survival motor neuron (SMN)-binding protein that may participate in pre-mRNA splicing and modulate mRNA transport along microtubuli. hnRNP Q contains an acidic auxiliary N-terminal region, followed by two well defined and one degenerated RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal RGG motif; hnRNP Q binds RNA through its RRM domains. . Length = 72

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

 Score = 42.2 bits (99), Expect = 1e-04
 Identities = 27/81 (33%), Positives = 35/81 (43%), Gaps = 5/81 (6%)

Query: 184 EDKPRGGGRGRSRSSSS-----RSRSKSRSRSRSSKSRSPRSRSKSGSPRKSKSKAKSVS 238
            D+ R   RGR R  SS     RSR +SR R R  +SR    R  S    + +  ++S  
Sbjct: 5   PDREREKSRGRDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSRPRDRRRYDSRSPR 64

Query: 239 RSPSPSKTRKRSRSRSDSRAR 259
                S  R R R R  SR+ 
Sbjct: 65  SLRYSSVRRSRDRPRRRSRSV 85

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

>gnl|CDD|240751 cd12305, RRM_NELFE, RNA recognition motif in negative elongation factor E (NELF-E) and similar proteins

 Score = 39.2 bits (92), Expect = 1e-04
 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 6/75 (8%)

Query: 2  VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDV---ILKNGFGFVEFEDYRDADDAVYELN 58
           G  +Y+ G  YG+ E  L+K    +G I ++     KN  GFV FE    AD A+ ELN
Sbjct: 3  KGNTLYVHG--YGLTEEILKKAFSPFGNIINISMEKEKNC-GFVTFEKMESADRAIAELN 59

Query: 59 GKSLLGERVTVEIAK 73
          G ++ G ++ V +A+
Sbjct: 60 GTTVQGVQLKVSLAR 74

This subfamily corresponds to the RRM of NELF-E, also termed RNA-binding protein RD. NELF-E is the RNA-binding subunit of cellular negative transcription elongation factor NELF (negative elongation factor) involved in transcriptional regulation of HIV-1 by binding to the stem of the viral transactivation-response element (TAR) RNA which is synthesized by cellular RNA polymerase II at the viral long terminal repeat. NELF is a heterotetrameric protein consisting of NELF A, B, C or the splice variant D, and E. NELF-E contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It plays a role in the control of HIV transcription by binding to TAR RNA. In addition, NELF-E is associated with the NELF-B subunit, probably via a leucine zipper motif. . Length = 75

>gnl|CDD|240938 cd12494, RRM3_hnRNPR, RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein R (hnRNP R)

 Score = 38.9 bits (90), Expect = 1e-04
 Identities = 22/68 (32%), Positives = 36/68 (52%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGE 65
          +++  L   V E  LEK    +G++  V     + FV FE+   A  A+ E+NGK + GE
Sbjct: 4  LFVRNLATTVTEEILEKSFSEFGKLERVKKLKDYAFVHFEERDAAVRAMDEMNGKEIEGE 63

Query: 66 RVTVEIAK 73
           + + +AK
Sbjct: 64 EIEIVLAK 71

This subgroup corresponds to the RRM3 of hnRNP R. a ubiquitously expressed nuclear RNA-binding protein that specifically bind mRNAs with a preference for poly(U) stretches. Upon binding of RNA, hnRNP R forms oligomers, most probably dimers. hnRNP R has been implicated in mRNA processing and mRNA transport, and also acts as a regulator to modify binding to ribosomes and RNA translation. hnRNP R is predominantly located in axons of motor neurons and to a much lower degree in sensory axons. In axons of motor neurons, it also functions as a cytosolic protein and interacts with wild type of survival motor neuron (SMN) proteins directly, further providing a molecular link between SMN and the spliceosome. Moreover, hnRNP R plays an important role in neural differentiation and development, as well as in retinal development and light-elicited cellular activities. hnRNP R contains an acidic auxiliary N-terminal region, followed by two well-defined and one degenerated RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal RGG motif; hnRNP R binds RNA through its RRM domains. . Length = 72

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

 Score = 38.7 bits (91), Expect = 2e-04
 Identities = 23/71 (32%), Positives = 32/71 (45%), Gaps = 5/71 (7%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEV--CY--ADAH-KRHRNEGVVEFESSSDMKKALDKL 170
           L V  LS+R + ++L+    + G V       D      R  G V FES  D   A+  L
Sbjct: 4   LFVSGLSTRTTEKELEALFSKFGRVEEVLLMKDPETGESRGFGFVTFESVEDADAAIRDL 63

Query: 171 DNAELNGRRIR 181
           +  EL GR I+
Sbjct: 64  NGKELEGRVIK 74

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

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

 Score = 39.0 bits (91), Expect = 2e-04
 Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 8/76 (10%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRD-VILKN-------GFGFVEFEDYRDADDAVYEL 57
          +++  L + V + DL  F      I+  V++ +       G+GFV F    DA +A+ +L
Sbjct: 2  LFVRNLAFSVTQEDLTDFFSDVAPIKHAVVVTDPETGESRGYGFVTFAMLEDAQEALAKL 61

Query: 58 NGKSLLGERVTVEIAK 73
            K L G  + ++IA+
Sbjct: 62 KNKKLHGRILRLDIAE 77

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

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

 Score = 38.7 bits (91), Expect = 2e-04
 Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 5/72 (6%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGE-----VCYADAHKRHRNEGVVEFESSSDMKKALDKL 170
           L V +L   V+   L +     G      VC     +R      V F++ +D ++ALD L
Sbjct: 2   LYVGDLHPDVTEAMLYEIFSPAGPVLSIRVCRDLITRRSLGYAYVNFQNPADAERALDTL 61

Query: 171 DNAELNGRRIRL 182
           +   + G+ IR+
Sbjct: 62  NFDVIKGKPIRI 73

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

>gnl|CDD|130706 TIGR01645, half-pint, poly-U binding splicing factor, half-pint family

 Score = 42.4 bits (99), Expect = 2e-04
 Identities = 37/191 (19%), Positives = 78/191 (40%), Gaps = 34/191 (17%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYE 56
           +VY+G + + +RE  + +    +G I+ + +          GF FVE+E    A  A+ +
Sbjct: 109 RVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQ 168

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRL 116
           +NG+ L G  + V     + ++Q                        D      +  +R+
Sbjct: 169 MNGQMLGGRNIKVGRPSNMPQAQPI---------------------IDMVQEEAKKFNRI 207

Query: 117 IVENLSSRVSWQDLKDFMRQVGEVCY-----ADAHKRHRNEGVVEFESSSDMKKALDKLD 171
            V ++   +S  D+K      GE+       A   + H+  G +E+ +     +A+  ++
Sbjct: 208 YVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN 267

Query: 172 NAELNGRRIRL 182
             +L G+ +R+
Sbjct: 268 LFDLGGQYLRV 278

The proteins represented by this model contain three RNA recognition motifs (rrm: pfam00076) and have been characterized as poly-pyrimidine tract binding proteins associated with RNA splicing factors. 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. Length = 612

>gnl|CDD|240778 cd12332, RRM1_p54nrb_like, RNA recognition motif 1 in the p54nrb/PSF/PSP1 family

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 19/67 (28%), Positives = 37/67 (55%), Gaps = 2/67 (2%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSL 62
          ++++G LP  + E + ++    YG + +V L  + GFGF+  +   +A+ A  EL+G   
Sbjct: 3  RLFVGNLPNDITEEEFKELFSKYGEVSEVFLNKEKGFGFIRLDTRTNAEKAKAELDGIMR 62

Query: 63 LGERVTV 69
           G ++ V
Sbjct: 63 KGRQLRV 69

This subfamily corresponds to the RRM1 of the p54nrb/PSF/PSP1 family, including 54 kDa nuclear RNA- and DNA-binding protein (p54nrb or NonO or NMT55), polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF or POMp100), paraspeckle protein 1 (PSP1 or PSPC1), which are ubiquitously expressed and are conserved in vertebrates. p54nrb is a multi-functional protein involved in numerous nuclear processes including transcriptional regulation, splicing, DNA unwinding, nuclear retention of hyperedited double-stranded RNA, viral RNA processing, control of cell proliferation, and circadian rhythm maintenance. PSF is also a multi-functional protein that binds RNA, single-stranded DNA (ssDNA), double-stranded DNA (dsDNA) and many factors, and mediates diverse activities in the cell. PSP1 is a novel nucleolar factor that accumulates within a new nucleoplasmic compartment, termed paraspeckles, and diffusely distributes in the nucleoplasm. The cellular function of PSP1 remains unknown currently. This subfamily also includes some p54nrb/PSF/PSP1 homologs from invertebrate species, such as the Drosophila melanogaster gene no-ontransient A (nonA) encoding puff-specific protein Bj6 (also termed NONA) and Chironomus tentans hrp65 gene encoding protein Hrp65. D. melanogaster NONA is involved in eye development and behavior, and may play a role in circadian rhythm maintenance, similar to vertebrate p54nrb. C. tentans Hrp65 is a component of nuclear fibers associated with ribonucleoprotein particles in transit from the gene to the nuclear pore. All family members contain a DBHS domain (for Drosophila behavior, human splicing), which comprises two conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a charged protein-protein interaction module. PSF has an additional large N-terminal domain that differentiates it from other family members. . Length = 71

>gnl|CDD|240916 cd12472, RRM1_RBMS3, RNA recognition motif 1 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

 Score = 38.7 bits (89), Expect = 2e-04
 Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 8/67 (11%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRI---RDVILKN-----GFGFVEFEDYRDADDAVY 55
          T +YI GLP G  ++DL K  + YG+I   + ++ KN     G+GFV+F+    A  AV 
Sbjct: 5  TNLYIRGLPPGTTDQDLIKLCQPYGKIVSTKAILDKNTNQCKGYGFVDFDSPAAAQKAVA 64

Query: 56 ELNGKSL 62
           L    +
Sbjct: 65 SLKANGV 71

This subgroup corresponds to the RRM1 of RBMS3, a new member of the c-myc gene single-strand binding proteins (MSSP) family of DNA regulators. Unlike other MSSP proteins, RBMS3 is not a transcriptional regulator. It binds with high affinity to A/U-rich stretches of RNA, and to A/T-rich DNA sequences, and functions as a regulator of cytoplasmic activity. RBMS3 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and its C-terminal region is acidic and enriched in prolines, glutamines and threonines. . Length = 80

>gnl|CDD|241106 cd12662, RRM3_MYEF2, RNA recognition motif 3 in vertebrate myelin expression factor 2 (MEF-2)

 Score = 38.5 bits (89), Expect = 3e-04
 Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 3/75 (4%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYAD---AHKRHRNEGVVEFESSSDMKKALDKLD 171
           ++ V NL   ++WQ LK+   Q G V +A+    + + +  G V F+S    +KA   ++
Sbjct: 1   QIFVRNLPFDLTWQKLKEKFSQCGHVMFAEIKMENGKSKGCGTVRFDSPESAEKACRLMN 60

Query: 172 NAELNGRRIRLIEDK 186
             ++NGR I +  D+
Sbjct: 61  GIKINGREIDVRLDR 75

This subgroup corresponds to the RRM3 of MEF-2, also termed MyEF-2 or MST156, a sequence-specific single-stranded DNA (ssDNA) binding protein that binds specifically to ssDNA derived from the proximal (MB1) element of the myelin basic protein (MBP) promoter and represses transcription of the MBP gene. MEF-2 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which may be responsible for its ssDNA binding activity. . Length = 77

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

 Score = 38.0 bits (89), Expect = 3e-04
 Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 8/68 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
          ++++  LP+   E +L +  + +G I +V L          GF FV F     A  A  E
Sbjct: 1  RLFVRNLPFTTTEEELRELFEAFGEISEVHLPLDKETKRSKGFAFVSFMFPEHAVKAYSE 60

Query: 57 LNGKSLLG 64
          L+G    G
Sbjct: 61 LDGSIFQG 68

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

>gnl|CDD|240817 cd12371, RRM2_PUF60, RNA recognition motif 2 in (U)-binding-splicing factor PUF60 and similar proteins

 Score = 38.0 bits (89), Expect = 3e-04
 Identities = 19/77 (24%), Positives = 40/77 (51%), Gaps = 8/77 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
           ++Y+  +   + E D++   + +G+I+   L          G+GF+E+E+ + A DA+ 
Sbjct: 1  NRIYVASVHPDLSEDDIKSVFEAFGKIKSCSLAPDPETGKHKGYGFIEYENPQSAQDAIA 60

Query: 56 ELNGKSLLGERVTVEIA 72
           +N   L G+++ V  A
Sbjct: 61 SMNLFDLGGQQLRVGKA 77

This subfamily corresponds to the RRM2 of PUF60, also termed FUSE-binding protein-interacting repressor (FBP-interacting repressor or FIR), or Ro-binding protein 1 (RoBP1), or Siah-binding protein 1 (Siah-BP1). PUF60 is an essential splicing factor that functions as a poly-U RNA-binding protein required to reconstitute splicing in depleted nuclear extracts. Its function is enhanced through interaction with U2 auxiliary factor U2AF65. PUF60 also controls human c-myc gene expression by binding and inhibiting the transcription factor far upstream sequence element (FUSE)-binding-protein (FBP), an activator of c-myc promoters. PUF60 contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors another RRM and binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) in several nuclear proteins. Research indicates that PUF60 binds FUSE as a dimer, and only the first two RRM domains participate in the single-stranded DNA recognition. . Length = 77

>gnl|CDD|240832 cd12386, RRM2_hnRNPM_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein M (hnRNP M) and similar proteins

 Score = 38.1 bits (89), Expect = 3e-04
 Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 4/69 (5%)

Query: 118 VENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           V NL  +V W+ LK+  +  G+V  A    D   + R  GVV+FE   +  +A+   +  
Sbjct: 3   VANLDYKVGWKKLKEVFKLAGKVVRADIKEDKEGKSRGMGVVQFEHPIEAVQAISMFNGQ 62

Query: 174 ELNGRRIRL 182
            L  R +R+
Sbjct: 63  MLFDRPMRV 71

This subfamily corresponds to the RRM2 of heterogeneous nuclear ribonucleoprotein M (hnRNP M), myelin expression factor 2 (MEF-2 or MyEF-2 or MST156) and similar proteins. hnRNP M is pre-mRNA binding protein that may play an important role in the pre-mRNA processing. It also preferentially binds to poly(G) and poly(U) RNA homopolymers. hnRNP M is able to interact with early spliceosomes, further influencing splicing patterns of specific pre-mRNAs. It functions as the receptor of carcinoembryonic antigen (CEA) that contains the penta-peptide sequence PELPK signaling motif. In addition, hnRNP M and another splicing factor Nova-1 work together as dopamine D2 receptor (D2R) pre-mRNA-binding proteins. They regulate alternative splicing of D2R pre-mRNA in an antagonistic manner. hnRNP M contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an unusual hexapeptide-repeat region rich in methionine and arginine residues (MR repeat motif). MEF-2 is a sequence-specific single-stranded DNA (ssDNA) binding protein that binds specifically to ssDNA derived from the proximal (MB1) element of the myelin basic protein (MBP) promoter and represses transcription of the MBP gene. MEF-2 shows high sequence homology with hnRNP M. It also contains three RRMs, which may be responsible for its ssDNA binding activity. . Length = 74

>gnl|CDD|241032 cd12588, RRM1_p54nrb, RNA recognition motif 1 in vertebrate 54 kDa nuclear RNA- and DNA-binding protein (p54nrb)

 Score = 37.9 bits (88), Expect = 4e-04
 Identities = 19/68 (27%), Positives = 38/68 (55%), Gaps = 2/68 (2%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAVYELNGKS 61
          +++++G LP  + E ++ K  + YG+  ++ +    GFGF+  E    A+ A  EL+   
Sbjct: 2  SRLFVGNLPPDITEEEMRKLFEKYGKAGEIFIHKDKGFGFIRLETRTLAEIAKAELDNMP 61

Query: 62 LLGERVTV 69
          L G+++ V
Sbjct: 62 LRGKQLRV 69

This subgroup corresponds to the RRM1 of p54nrb, also termed non-POU domain-containing octamer-binding protein (NonO), or 55 kDa nuclear protein (NMT55), or DNA-binding p52/p100 complex 52 kDa subunit. p54nrb is a multifunctional protein involved in numerous nuclear processes including transcriptional regulation, splicing, DNA unwinding, nuclear retention of hyperedited double-stranded RNA, viral RNA processing, control of cell proliferation, and circadian rhythm maintenance. It is ubiquitously expressed and highly conserved in vertebrates. p54nrb binds both, single- and double-stranded RNA and DNA, and also possesses inherent carbonic anhydrase activity. It forms a heterodimer with paraspeckle component 1 (PSPC1 or PSP1), localizing to paraspeckles in an RNA-dependent manneras well as with polypyrimidine tract-binding protein-associated-splicing factor (PSF). p54nrb contains two conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), at the N-terminus. . Length = 71

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

 Score = 37.7 bits (88), Expect = 4e-04
 Identities = 22/70 (31%), Positives = 30/70 (42%), Gaps = 8/70 (11%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYEL 57
          +++G L +   E  + +    YG I  V L          GFG+VEF     A  A+  L
Sbjct: 1  LFVGNLSFDADEDSIYEAFGEYGEISSVRLPTDPDSGRPKGFGYVEFSSQEAAQAALDAL 60

Query: 58 NGKSLLGERV 67
           G  LLG  V
Sbjct: 61 GGTDLLGRPV 70

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

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

 Score = 37.6 bits (88), Expect = 4e-04
 Identities = 26/70 (37%), Positives = 38/70 (54%), Gaps = 7/70 (10%)

Query: 118 VENLSSRVSWQDLKDFMRQVG-----EVCYADAHK-RHRNEGVVEFESSSDMKKALDKLD 171
           V  LS   + +DL++   + G     +V Y D    R R  G V FES  D K+A ++L+
Sbjct: 4   VFGLSLYTTERDLREVFSRYGPIEKVQVVY-DQKTGRSRGFGFVYFESVEDAKEAKERLN 62

Query: 172 NAELNGRRIR 181
             E++GRRIR
Sbjct: 63  GMEIDGRRIR 72

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

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

 Score = 37.6 bits (88), Expect = 5e-04
 Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 5/78 (6%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYAD-----AHKRHRNEGVVEFESSSDMKKALDKL 170
           L V NL    + + L++F  +VG +           K+ R  G V F    D K+AL++ 
Sbjct: 2   LFVRNLPYDTTDEQLEEFFSEVGPIKRCFVVKDKGSKKCRGFGYVTFALEEDAKRALEEK 61

Query: 171 DNAELNGRRIRLIEDKPR 188
              +  GR+I +   K +
Sbjct: 62  KKTKFGGRKIHVEFAKKK 79

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

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

 Score = 37.7 bits (88), Expect = 5e-04
 Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 10/74 (13%)

Query: 7  YIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELN 58
          ++G LP+   + DL+   K    ++ V L          GF +VEFED     +A+ E +
Sbjct: 5  FVGNLPFNTVQGDLDAIFKDL-SVKSVRLVRDKETDKFKGFCYVEFEDVESLKEAL-EYD 62

Query: 59 GKSLLGERVTVEIA 72
          G       + V+IA
Sbjct: 63 GALFDDRSLRVDIA 76

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

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

 Score = 37.6 bits (88), Expect = 5e-04
 Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 12/66 (18%)

Query: 7  YIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV---- 54
          +IGGL +   E  L ++   YG + D ++          GFGFV F D    D  +    
Sbjct: 2  FIGGLSWDTTEESLREYFSKYGEVVDCVIMKDPITGRSRGFGFVTFADPSSVDKVLAAKP 61

Query: 55 YELNGK 60
          + L+G+
Sbjct: 62 HVLDGR 67

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

>gnl|CDD|240722 cd12276, RRM2_MEI2_EAR1_like, RNA recognition motif 2 in Mei2-like proteins and terminal EAR1-like proteins

 Score = 37.2 bits (87), Expect = 5e-04
 Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 3/47 (6%)

Query: 27 YGRIRDVILKNGFG---FVEFEDYRDADDAVYELNGKSLLGERVTVE 70
          +G ++D+          FVEF D R A+ A+  LNG+  LG R+ V+
Sbjct: 25 FGEVKDIRETPLRPSQKFVEFYDIRAAEAALDALNGRPFLGGRLKVK 71

This subfamily corresponds to the RRM2 of Mei2-like proteins from plant and fungi, terminal EAR1-like proteins from plant, and other eukaryotic homologs. Mei2-like proteins represent an ancient eukaryotic RNA-binding proteins family whose corresponding Mei2-like genes appear to have arisen early in eukaryote evolution, been lost from some lineages such as Saccharomyces cerevisiae and metazoans, and diversified in the plant lineage. The plant Mei2-like genes may function in cell fate specification during development, rather than as stimulators of meiosis. In the fission yeast Schizosaccharomyces pombe, the Mei2 protein is an essential component of the switch from mitotic to meiotic growth. S. pombe Mei2 stimulates meiosis in the nucleus upon binding a specific non-coding RNA. The terminal EAR1-like protein 1 and 2 (TEL1 and TEL2) are mainly found in land plants. They may play a role in the regulation of leaf initiation. All members in this family are putative RNA-binding proteins carrying three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). In addition to the RRMs, the terminal EAR1-like proteins also contain TEL characteristic motifs that allow sequence and putative functional discrimination between them and Mei2-like proteins. . Length = 71

>gnl|CDD|241117 cd12673, RRM_BOULE, RNA recognition motif in protein BOULE

 Score = 37.5 bits (87), Expect = 5e-04
 Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 7/61 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------GFGFVEFEDYRDADDAVYEL 57
          ++++GG+ +   E DL KF   YG +++V + N       G+GFV FE   DA   + E 
Sbjct: 4  RIFVGGIDFKTNENDLRKFFSQYGTVKEVKIVNDRAGVSKGYGFVTFETQEDAQKILQEA 63

Query: 58 N 58
          N
Sbjct: 64 N 64

This subgroup corresponds to the RRM of BOULE, the founder member of the human DAZ gene family. Invertebrates contain a single BOULE, while vertebrates, other than catarrhine primates, possess both BOULE and DAZL genes. The catarrhine primates possess BOULE, DAZL, and DAZ genes. BOULE encodes an RNA-binding protein containing an RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a single copy of the DAZ motif. Although its specific biochemical functions remains to be investigated, BOULE protein may interact with poly(A)-binding proteins (PABPs), and act as translational activators of specific mRNAs during gametogenesis. . Length = 81

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

 Score = 40.3 bits (94), Expect = 6e-04
 Identities = 22/75 (29%), Positives = 29/75 (38%), Gaps = 7/75 (9%)

Query: 188 RGGGRGRSRSSSSRSRSKSRSRSRSSKSRSPRSRSKSGSPRKSKSKAKSVSRSPSPSKTR 247
           R   R     S  R R +  SRS  S   S   RS+    R+S+S         S  + R
Sbjct: 40  RSRERSYREDSRPRDRRRYDSRSPRSLRYSSVRRSRDRPRRRSRS-------VRSIEQHR 92

Query: 248 KRSRSRSDSRARKVS 262
           +R R RS S   +  
Sbjct: 93  RRLRDRSPSNQWRKD 107

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

>gnl|CDD|240973 cd12529, RRM2_MEI2_like, RNA recognition motif 2 in plant Mei2-like proteins

 Score = 37.1 bits (86), Expect = 6e-04
 Identities = 23/69 (33%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEV--CYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           L+V NL   VS  DL       GE+       +KRH     +EF      + AL  L+ +
Sbjct: 4   LVVFNLDPSVSNDDLHQIFGAYGEIKEIRETPNKRHHK--FIEFYDVRSAEAALKALNRS 61

Query: 174 ELNGRRIRL 182
           E+ G+RI+L
Sbjct: 62  EIAGKRIKL 70

This subgroup corresponds to the RRM2 of Mei2-like proteins that represent an ancient eukaryotic RNA-binding proteins family. Their corresponding Mei2-like genes appear to have arisen early in eukaryote evolution, been lost from some lineages such as Saccharomyces cerevisiae and metazoans, and diversified in the plant lineage. The plant Mei2-like genes may function in cell fate specification during development, rather than as stimulators of meiosis. Members in this family contain three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The C-terminal RRM (RRM3) is unique to Mei2-like proteins and is highly conserved between plants and fungi. To date, the intracellular localization, RNA target(s), cellular interactions and phosphorylation states of Mei2-like proteins in plants remain unclear. . Length = 71

>gnl|CDD|241065 cd12621, RRM3_TIA1, RNA recognition motif 3 in nucleolysin TIA-1 isoform p40 (p40-TIA-1) and similar proteins

 Score = 37.3 bits (86), Expect = 6e-04
 Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 2/64 (3%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLL 63
          VY GG+  G+ E+ + +    +G+I +V +    G+ FV F  +  A  A+  +NG ++ 
Sbjct: 3  VYCGGVTSGLTEQLMRQTFSPFGQIMEVRVFPDKGYSFVRFNSHESAAHAIVSVNGTTIE 62

Query: 64 GERV 67
          G  V
Sbjct: 63 GHVV 66

This subgroup corresponds to the RRM3 of p40-TIA-1, the 40-kDa isoform of T-cell-restricted intracellular antigen-1 (TIA-1) and a cytotoxic granule-associated RNA-binding protein mainly found in the granules of cytotoxic lymphocytes. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis, and function as the granule component responsible for inducing apoptosis in cytolytic lymphocyte (CTL) targets. It is composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 interacts with RNAs containing short stretches of uridylates and its RRM2 can mediate the specific binding to uridylate-rich RNAs. . Length = 74

>gnl|CDD|233507 TIGR01648, hnRNP-R-Q, heterogeneous nuclear ribonucleoprotein R, Q family

 Score = 40.4 bits (94), Expect = 6e-04
 Identities = 65/270 (24%), Positives = 102/270 (37%), Gaps = 45/270 (16%)

Query: 5   KVYIGGLP-YGVRERDLEKFVKGYGRIRDVIL--------KN-GFGFVEFEDYRDADDAV 54
           ++++GG+P    RE  LE+F K    + DVI+        KN GF FVE+E +R A  A 
Sbjct: 140 RLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMAR 199

Query: 55  YEL-NGK-SLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRS 112
            +L  G+  L G  + V+                           W    ++        
Sbjct: 200 RKLMPGRIQLWGHVIAVD---------------------------WAEPEEEVDEDVMAK 232

Query: 113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDN 172
              L V NL +  + + ++    +       +  K+ R+   V FE   D  KA+D+L+ 
Sbjct: 233 VKILYVRNLMTTTTEEIIEKSFSEFKPGK-VERVKKIRDYAFVHFEDREDAVKAMDELNG 291

Query: 173 AELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKSR----SPRSRSKSGSPR 228
            EL G  I +   KP         +  +  R K R  +R S  +    + RS +      
Sbjct: 292 KELEGSEIEVTLAKPVDKKSYVRYTRGTGGRGKERQAARQSLGQVYDPASRSLAYEDYY- 350

Query: 229 KSKSKAKSVSRSPSPSKTRKRSRSRSDSRA 258
                A S+     P   R R R  + SRA
Sbjct: 351 YHPPYAPSLHFPRMPGPIRGRGRGGAPSRA 380

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. Length = 578

>gnl|CDD|220013 pfam08777, RRM_3, RNA binding motif

 Score = 37.7 bits (88), Expect = 7e-04
 Identities = 22/60 (36%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL 175
           L    L+   S +D+K+   Q GEV Y D       EG V F++    KKAL+K   A+L
Sbjct: 4   LKFSGLNKPTSREDIKEAFSQHGEVKYVD-FLEGDKEGYVRFKTPEAAKKALEKATEAKL 62

This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif. Length = 102

>gnl|CDD|241124 cd12680, RRM_THOC4, RNA recognition motif in THO complex subunit 4 (THOC4) and similar proteins

 Score = 37.2 bits (87), Expect = 7e-04
 Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 4/68 (5%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKL 170
           +L+V NL   VS  D+K+   + G +  A    D   R      V FE  +D  KA+ + 
Sbjct: 2   KLLVSNLDFGVSDDDIKELFAEFGALKKAAVHYDRSGRSLGTADVVFERRADALKAMKQY 61

Query: 171 DNAELNGR 178
           +   L+GR
Sbjct: 62  NGVPLDGR 69

This subgroup corresponds to the RRM of THOC4, also termed transcriptional coactivator Aly/REF, or ally of AML-1 and LEF-1, or bZIP-enhancing factor BEF, an mRNA transporter protein with a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It is involved in RNA transportation from the nucleus. THOC4 was initially identified as a transcription coactivator of LEF-1 and AML-1 for the TCRalpha enhancer function. In addition, THOC4 specifically binds to rhesus (RH) promoter in erythroid. It might be a novel transcription cofactor for erythroid-specific genes. . Length = 75

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

 Score = 37.3 bits (87), Expect = 7e-04
 Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 6/71 (8%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL------KNGFGFVEFEDYRDADDAVYELNG 59
          +++G L   V + +L +    +G+I +V L       N F F++FE  + A  AV   N 
Sbjct: 6  IFVGQLSPDVTKEELNERFSRHGKILEVNLIKRANHTNAFAFIKFEREQAAARAVESENH 65

Query: 60 KSLLGERVTVE 70
            L  + + V+
Sbjct: 66 SMLKNKTMHVQ 76

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

>gnl|CDD|240855 cd12409, RRM1_RRT5, RNA recognition motif 1 in yeast regulator of rDNA transcription protein 5 (RRT5) and similar proteins

 Score = 37.4 bits (87), Expect = 8e-04
 Identities = 22/78 (28%), Positives = 33/78 (42%), Gaps = 13/78 (16%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------------GFGFVEFEDYRDAD 51
          +VYI  L Y   E DLE+F+K +  +  +I                G  + EF     A+
Sbjct: 1  RVYISNLSYSSSEEDLEEFLKDFEPVSVLIPSQTVRGFRSRRVRPLGIAYAEFSSPEQAE 60

Query: 52 DAVYELNGKSLLGERVTV 69
            V +LNGK     ++ V
Sbjct: 61 KVVKDLNGKVFKNRKLFV 78

This subfamily corresponds to the RRM1 of the lineage specific family containing a group of uncharacterized yeast regulators of rDNA transcription protein 5 (RRT5), which may play roles in the modulation of rDNA transcription. RRT5 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 84

>gnl|CDD|240864 cd12418, RRM_Aly_REF_like, RNA recognition motif in the Aly/REF family

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 7/75 (9%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYE 56
          T++ +  L Y V E DLE+     G ++ V +         G   V FE   DA+ A+ +
Sbjct: 1  TRLRVSNLHYDVTEEDLEELFGRVGEVKKVKINYDRSGRSEGTADVVFEKREDAERAIKQ 60

Query: 57 LNGKSLLGERVTVEI 71
           NG  L G+ + VE+
Sbjct: 61 FNGVLLDGQPMQVEL 75

This subfamily corresponds to the RRM of Aly/REF family which includes THO complex subunit 4 (THOC4, also termed Aly/REF), S6K1 Aly/REF-like target (SKAR, also termed PDIP3 or PDIP46) and similar proteins. THOC4 is an mRNA transporter protein with a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It is involved in RNA transportation from the nucleus, and was initially identified as a transcription coactivator of LEF-1 and AML-1 for the TCRalpha enhancer function. In addition, THOC4 specifically binds to rhesus (RH) promoter in erythroid, and might be a novel transcription cofactor for erythroid-specific genes. SKAR shows high sequence homology with THOC4 and possesses one RRM as well. SKAR is widely expressed and localizes to the nucleus. It may be a critical player in the function of S6K1 in cell and organism growth control by binding the activated, hyperphosphorylated form of S6K1 but not S6K2. Furthermore, SKAR functions as a protein partner of the p50 subunit of DNA polymerase delta. In addition, SKAR may have particular importance in pancreatic beta cell size determination and insulin secretion. . Length = 75

>gnl|CDD|240985 cd12541, RRM2_La, RNA recognition motif 2 in La autoantigen (La or LARP3) and similar proteins

 Score = 36.8 bits (86), Expect = 0.001
 Identities = 23/74 (31%), Positives = 39/74 (52%), Gaps = 6/74 (8%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL---DN 172
           L    +  + S +DLK+   + GEV + D   R + EG V F+  +  K+AL+KL    N
Sbjct: 4   LHFSGVGEQTSREDLKEAFEEFGEVAWVD-FARGQTEGYVRFKEENAAKEALEKLKEAKN 62

Query: 173 AELNGRRI--RLIE 184
            ++ G  +  +L+E
Sbjct: 63  LKIKGSEVTVKLLE 76

This subgroup corresponds to the RRM2 of La autoantigen, also termed Lupus La protein, or La ribonucleoprotein, or Sjoegren syndrome type B antigen (SS-B), a highly abundant nuclear phosphoprotein and well conserved in eukaryotes. It specifically binds the 3'-terminal UUU-OH motif of nascent RNA polymerase III transcripts and protects them from exonucleolytic degradation by 3' exonucleases. In addition, La can directly facilitate the translation and/or metabolism of many UUU-3' OH-lacking cellular and viral mRNAs, through binding internal RNA sequences within the untranslated regions of target mRNAs. La contains an N-terminal La motif (LAM), followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). In addition, it possesses a short basic motif (SBM) and a nuclear localization signal (NLS) at the C-terminus. . Length = 76

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

 Score = 36.6 bits (85), Expect = 0.001
 Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 8/71 (11%)

Query: 6  VYIGGLPYGVRERDLEKFVKG-------YGRIRDVILKNGFGFVEFEDYRDADDAVYELN 58
          VYIG L + + E D+ +F KG           ++     GFG V+F D    D A+ +L+
Sbjct: 2  VYIGNLAWDITEDDVREFFKGCEITSVRLATDKETGEFKGFGHVDFADEESLDAAL-KLD 60

Query: 59 GKSLLGERVTV 69
          G  L G  + +
Sbjct: 61 GTVLCGRPIRI 71

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

>gnl|CDD|240767 cd12321, RRM1_TDP43, RNA recognition motif 1 in TAR DNA-binding protein 43 (TDP-43) and similar proteins

 Score = 36.6 bits (85), Expect = 0.001
 Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 11/65 (16%)

Query: 10 GLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKS 61
          GLP+   E+DL+ +   +G +  V +K         GFGFV F DY   +D V  L+ + 
Sbjct: 6  GLPWKTTEQDLKDYFSTFGELLMVQVKKDPKTGQSKGFGFVRFADY---EDQVKVLSQRH 62

Query: 62 LLGER 66
          ++  R
Sbjct: 63 MIDGR 67

This subfamily corresponds to the RRM1 of TDP-43 (also termed TARDBP), a ubiquitously expressed pathogenic protein whose normal function and abnormal aggregation are directly linked to the genetic disease cystic fibrosis, and two neurodegenerative disorders: frontotemporal lobar degeneration (FTLD) and amyotrophic lateral sclerosis (ALS). TDP-43 binds both DNA and RNA, and has been implicated in transcriptional repression, pre-mRNA splicing and translational regulation. TDP-43 is a dimeric protein with two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal glycine-rich domain. The RRMs are responsible for DNA and RNA binding; they bind to TAR DNA and RNA sequences with UG-repeats. The glycine-rich domain can interact with the hnRNP family proteins to form the hnRNP-rich complex involved in splicing inhibition. It is also essential for the cystic fibrosis transmembrane conductance regulator (CFTR) exon 9-skipping activity. . Length = 77

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

 Score = 36.8 bits (86), Expect = 0.001
 Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 7/76 (9%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNG----FGFVEFEDYRDADDAVYE 56
          +++ +  LP  V E  L +  +  G + DV +   ++G    FGFV F+   DA  AV  
Sbjct: 1  SRIIVKNLPKYVTEDRLREHFESKGEVTDVKVMRTRDGKSRRFGFVGFKSEEDAQQAVKY 60

Query: 57 LNGKSLLGERVTVEIA 72
           N   +   +++VE+A
Sbjct: 61 FNKTFIDTSKISVELA 76

This subgroup corresponds to the RRM1 of MRD1 which is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well-conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). MRD1 is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. It contains 5 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which may play an important structural role in organizing specific rRNA processing events. . Length = 76

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

 Score = 36.5 bits (85), Expect = 0.001
 Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 12/65 (18%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN---GFGFVEFEDYRDADDAVYELNGK 60
           KV++G L   + E DL ++   +G + DV +      F FV F    D + A      +
Sbjct: 1  RKVFVGRLTEDMTEEDLRQYFSQFGEVTDVYIPKPFRAFAFVTF---ADPEVA------Q 51

Query: 61 SLLGE 65
          SL GE
Sbjct: 52 SLCGE 56

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

>gnl|CDD|240675 cd12229, RRM_G3BP, RNA recognition motif (RRM) in ras GTPase-activating protein-binding protein G3BP1, G3BP2 and similar proteins

 Score = 36.6 bits (85), Expect = 0.001
 Identities = 17/50 (34%), Positives = 30/50 (60%), Gaps = 8/50 (16%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKNG-------FGFVEFED 46
          ++++G LP+ + E +L++F K +G + +V I   G       FGFV F+D
Sbjct: 5  QLFVGNLPHDITEDELKEFFKEFGNVLEVRINSKGGGGRLPNFGFVVFDD 54

This subfamily corresponds to the RRM domain in the G3BP family of RNA-binding and SH3 domain-binding proteins. G3BP acts at the level of RNA metabolism in response to cell signaling, possibly as RNA transcript stabilizing factors or an RNase. Members include G3BP1, G3BP2 and similar proteins. These proteins associate directly with the SH3 domain of GTPase-activating protein (GAP), which functions as an inhibitor of Ras. They all contain an N-terminal nuclear transfer factor 2 (NTF2)-like domain, an acidic domain, a domain containing PXXP motif(s), an RNA recognition motif (RRM), and an Arg-Gly-rich region (RGG-rich region, or arginine methylation motif). Length = 81

>gnl|CDD|241058 cd12614, RRM1_PUB1, RNA recognition motif 1 in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins

 Score = 36.8 bits (85), Expect = 0.001
 Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 7/74 (9%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDV---ILKN----GFGFVEFEDYRDADDAVYELN 58
          +Y+G L   V E  L++  +  G +++V     KN     +GFVE+    DA+ A+  LN
Sbjct: 1  LYVGNLDPRVTEDILKQIFQVGGPVQNVKIIPDKNNKGVNYGFVEYHQSHDAEIALQTLN 60

Query: 59 GKSLLGERVTVEIA 72
          G+ +    + V  A
Sbjct: 61 GRQIENNEIRVNWA 74

This subgroup corresponds to the RRM1 of yeast protein PUB1, also termed ARS consensus-binding protein ACBP-60, or poly uridylate-binding protein, or poly(U)-binding protein. PUB1 has been identified as both, a heterogeneous nuclear RNA-binding protein (hnRNP) and a cytoplasmic mRNA-binding protein (mRNP), which may be stably bound to a translationally inactive subpopulation of mRNAs within the cytoplasm. It is distributed in both, the nucleus and the cytoplasm, and binds to poly(A)+ RNA (mRNA or pre-mRNA). Although it is one of the major cellular proteins cross-linked by UV light to polyadenylated RNAs in vivo, PUB1 is nonessential for cell growth in yeast. PUB1 also binds to T-rich single stranded DNA (ssDNA); however, there is no strong evidence implicating PUB1 in the mechanism of DNA replication. PUB1 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a GAR motif (glycine and arginine rich stretch) that is located between RRM2 and RRM3. . Length = 74

>gnl|CDD|218883 pfam06075, DUF936, Plant protein of unknown function (DUF936)

 Score = 39.8 bits (93), Expect = 0.001
 Identities = 20/84 (23%), Positives = 31/84 (36%)

Query: 177 GRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKSRSPRSRSKSGSPRKSKSKAKS 236
           GRR  +   + RG    R + +   +  K  SRS   KS      S + SP KS  + K+
Sbjct: 206 GRRSSIGSRRLRGSASLRKKVAVLSAPRKPGSRSSDCKSSPRARSSSAKSPFKSSIQRKA 265

Query: 237 VSRSPSPSKTRKRSRSRSDSRARK 260
                  S       +   S++  
Sbjct: 266 TKALSKLSLRASPKDTSKSSKSEV 289

This family consists of several hypothetical proteins from Arabidopsis thaliana and Oryza sativa. The function of this family is unknown. Length = 564

>gnl|CDD|240836 cd12390, RRM3_RAVER, RNA recognition motif 3 in ribonucleoprotein PTB-binding raver-1, raver-2 and similar proteins

 Score = 36.9 bits (86), Expect = 0.001
 Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 8/71 (11%)

Query: 7  YIGGLPYGVRERD-LEKFVKGYGRIRD--VILKN-----GFGFVEFEDYRDADDAVYELN 58
          ++  LP   R+   L K     G+     + +       GF FVE+    DA++A   LN
Sbjct: 6  FVDRLPKTFRDVSILRKLFSQVGKPTFCQLAIAPNGQPRGFAFVEYATAEDAEEAQQALN 65

Query: 59 GKSLLGERVTV 69
          G SL G  + V
Sbjct: 66 GHSLQGSPIRV 76

This subfamily corresponds to the RRM3 of raver-1 and raver-2. Raver-1 is a ubiquitously expressed heterogeneous nuclear ribonucleoprotein (hnRNP) that serves as a co-repressor of the nucleoplasmic splicing repressor polypyrimidine tract-binding protein (PTB)-directed splicing of select mRNAs. It shuttles between the cytoplasm and the nucleus and can accumulate in the perinucleolar compartment, a dynamic nuclear substructure that harbors PTB. Raver-1 also modulates focal adhesion assembly by binding to the cytoskeletal proteins, including alpha-actinin, vinculin, and metavinculin (an alternatively spliced isoform of vinculin) at adhesion complexes, particularly in differentiated muscle tissue. Raver-2 is a novel member of the heterogeneous nuclear ribonucleoprotein (hnRNP) family. It shows high sequence homology to raver-1. Raver-2 exerts a spatio-temporal expression pattern during embryogenesis and is mainly limited to differentiated neurons and glia cells. Although it displays nucleo-cytoplasmic shuttling in heterokaryons, raver2 localizes to the nucleus in glia cells and neurons. Raver-2 can interact with PTB and may participate in PTB-mediated RNA-processing. However, there is no evidence indicating that raver-2 can bind to cytoplasmic proteins. Both, raver-1 and raver-2, contain three N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two putative nuclear localization signals (NLS) at the N- and C-termini, a central leucine-rich region, and a C-terminal region harboring two [SG][IL]LGxxP motifs. They binds to RNA through the RRMs. In addition, the two [SG][IL]LGxxP motifs serve as the PTB-binding motifs in raver1. However, raver-2 interacts with PTB through the SLLGEPP motif only. . Length = 92

>gnl|CDD|240690 cd12244, RRM2_MSSP, RNA recognition motif 2 in the c-myc gene single-strand binding proteins (MSSP) family

 Score = 36.6 bits (85), Expect = 0.001
 Identities = 26/69 (37%), Positives = 36/69 (52%), Gaps = 7/69 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGR-IRDVILKN------GFGFVEFEDYRDADDAVYE 56
          T +YI  LP  + E+DLE  +K YG+ I   IL++      G GF   E     +D + +
Sbjct: 1  TNLYISNLPLHMDEQDLETMLKPYGQVISTRILRDSKGQSRGVGFARMESREKCEDIISK 60

Query: 57 LNGKSLLGE 65
           NGK L GE
Sbjct: 61 FNGKYLKGE 69

This subfamily corresponds to the RRM2 of c-myc gene single-strand binding proteins (MSSP) family, including single-stranded DNA-binding protein MSSP-1 (also termed RBMS1 or SCR2) and MSSP-2 (also termed RBMS2 or SCR3). All MSSP family members contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), both of which are responsible for the specific DNA binding activity. Both, MSSP-1 and -2, have been identified as protein factors binding to a putative DNA replication origin/transcriptional enhancer sequence present upstream from the human c-myc gene in both single- and double-stranded forms. Thus they have been implied in regulating DNA replication, transcription, apoptosis induction, and cell-cycle movement, via the interaction with C-MYC, the product of protooncogene c-myc. Moreover, they family includes a new member termed RNA-binding motif, single-stranded-interacting protein 3 (RBMS3), which is not a transcriptional regulator. RBMS3 binds with high affinity to A/U-rich stretches of RNA, and to A/T-rich DNA sequences, and functions as a regulator of cytoplasmic activity. In addition, a putative meiosis-specific RNA-binding protein termed sporulation-specific protein 5 (SPO5, or meiotic RNA-binding protein 1, or meiotically up-regulated gene 12 protein), encoded by Schizosaccharomyces pombe Spo5/Mug12 gene, is also included in this family. SPO5 is a novel meiosis I regulator that may function in the vicinity of the Mei2 dot. . Length = 79

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

 Score = 36.6 bits (85), Expect = 0.001
 Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 9/73 (12%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYEL 57
          VY+GG+PY   E ++  +    G I ++ L          G  F+ F+   +A      L
Sbjct: 1  VYVGGIPYYSTEDEIRSYFSYCGEIEELDLMTFPDTGRFRGIAFITFKT-EEAAKRALAL 59

Query: 58 NGKSLLGERVTVE 70
          +G+ + G  + VE
Sbjct: 60 DGEDMGGRFLKVE 72

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

>gnl|CDD|241219 cd12775, RRM2_HuB, RNA recognition motif 2 in vertebrate Hu-antigen B (HuB)

 Score = 37.1 bits (85), Expect = 0.001
 Identities = 25/77 (32%), Positives = 44/77 (57%), Gaps = 10/77 (12%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRI---RDVI-----LKNGFGFVEFEDYRDADDAVYEL 57
          +Y+ GLP  + +++LE+    YGRI   R ++     +  G GF+ F+   +A++A+  L
Sbjct: 8  LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 67

Query: 58 NGKSLLG--ERVTVEIA 72
          NG+   G  E +TV+ A
Sbjct: 68 NGQKPPGATEPITVKFA 84

This subgroup corresponds to the RRM2 of HuB, also termed ELAV-like protein 2 (ELAV-2), or ELAV-like neuronal protein 1, or nervous system-specific RNA-binding protein Hel-N1 (Hel-N1), one of the neuronal members of the Hu family. The neuronal Hu proteins play important roles in neuronal differentiation, plasticity and memory. HuB is also expressed in gonads. It is up-regulated during neuronal differentiation of embryonic carcinoma P19 cells. Like other Hu proteins, HuB 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 AU-rich RNA element (ARE). RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 90

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

 Score = 36.5 bits (85), Expect = 0.001
 Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 5/65 (7%)

Query: 118 VENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           V NL   V   +L+    + GE+       +   + +    VEFE+   +++AL KLD  
Sbjct: 4   VSNLDYSVPEDELRKLFSKCGEITDVRLVKNYKGKSKGYAYVEFENEESVQEAL-KLDRE 62

Query: 174 ELNGR 178
            + GR
Sbjct: 63  LIKGR 67

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

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

 Score = 36.5 bits (85), Expect = 0.001
 Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 9/72 (12%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAVYEL 57
          +++G + YG    +L++  K  G I  + IL +       GF ++EF D    ++A+  L
Sbjct: 2  IFVGNVDYGTTPEELQEHFKSCGTINRITILCDKFTGQPKGFAYIEFLDKSSVENAL-LL 60

Query: 58 NGKSLLGERVTV 69
          N     G ++ V
Sbjct: 61 NESEFRGRQIKV 72

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

>gnl|CDD|241218 cd12774, RRM2_HuD, RNA recognition motif 2 in vertebrate Hu-antigen D (HuD)

 Score = 36.6 bits (84), Expect = 0.001
 Identities = 25/77 (32%), Positives = 44/77 (57%), Gaps = 10/77 (12%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRI---RDVI-----LKNGFGFVEFEDYRDADDAVYEL 57
          +Y+ GLP  + +++LE+    YGRI   R ++     +  G GF+ F+   +A++A+  L
Sbjct: 5  LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 64

Query: 58 NGKSLLG--ERVTVEIA 72
          NG+   G  E +TV+ A
Sbjct: 65 NGQKPSGAAEPITVKFA 81

This subgroup corresponds to the RRM2 of HuD, also termed ELAV-like protein 4 (ELAV-4), or paraneoplastic encephalomyelitis antigen HuD, one of the neuronal members of the Hu family. The neuronal Hu proteins play important roles in neuronal differentiation, plasticity and memory. HuD has been implicated in various aspects of neuronal function, such as the commitment and differentiation of neuronal precursors as well as synaptic remodeling in mature neurons. HuD also functions as an important regulator of mRNA expression in neurons by interacting with AU-rich RNA element (ARE) and stabilizing multiple transcripts. Moreover, HuD regulates the nuclear processing/stability of N-myc pre-mRNA in neuroblastoma cells and also regulates the neurite elongation and morphological differentiation. HuD specifically binds poly(A) RNA. Like other Hu proteins, HuD contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an ARE. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 81

>gnl|CDD|240971 cd12527, RRM2_EAR1_like, RNA recognition motif 2 in terminal EAR1-like proteins

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 20 LEKFVKGYG---RIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVE 70
          L    + YG    +R+   K    FVEF D RDA  A+  +NGK + G+ V +E
Sbjct: 18 LRSIFQVYGDVKELRETPCKREQRFVEFFDVRDAAKALRAMNGKEISGKPVVIE 71

This subgroup corresponds to the RRM2 of terminal EAR1-like proteins, including terminal EAR1-like protein 1 and 2 (TEL1 and TEL2) found in land plants. They may play a role in the regulation of leaf initiation. The terminal EAR1-like proteins are putative RNA-binding proteins carrying three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and TEL characteristic motifs that allow sequence and putative functional discrimination between the terminal EAR1-like proteins and Mei2-like proteins. . Length = 71

>gnl|CDD|241217 cd12773, RRM2_HuR, RNA recognition motif 2 in vertebrate Hu-antigen R (HuR)

 Score = 36.5 bits (84), Expect = 0.001
 Identities = 23/77 (29%), Positives = 38/77 (49%), Gaps = 10/77 (12%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAVYEL 57
          +YI GLP  + ++D+E     +GRI        +   L  G  F+ F+   +A++A+   
Sbjct: 3  LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQATGLSRGVAFIRFDKRSEAEEAITSF 62

Query: 58 NGKSLLG--ERVTVEIA 72
          NG    G  E +TV+ A
Sbjct: 63 NGHKPPGSSEPITVKFA 79

This subgroup corresponds to the RRM2 of HuR, also termed ELAV-like protein 1 (ELAV-1), the ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. HuR has an anti-apoptotic function during early cell stress response. It binds to mRNAs and enhances the expression of several anti-apoptotic proteins, such as p21waf1, p53, and prothymosin alpha. HuR also has pro-apoptotic function by promoting apoptosis when cell death is unavoidable. Furthermore, HuR may be important in muscle differentiation, adipogenesis, suppression of inflammatory response and modulation of gene expression in response to chronic ethanol exposure and amino acid starvation. Like other Hu proteins, HuR 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 AU-rich RNA element (ARE). RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 84

>gnl|CDD|240669 cd12223, RRM_SR140, RNA recognition motif (RRM) in U2-associated protein SR140 and similar proteins

 Score = 36.1 bits (84), Expect = 0.002
 Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 11/83 (13%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDV-IL----------KNGFGFVEFEDYRDADD 52
          T +Y+G L   V E  L +    +G +  V I+              GFV F +  DA+ 
Sbjct: 2  TNLYVGNLNPKVTEEVLCQEFGRFGPLASVKIMWPRTEEERRRNRNCGFVAFMNRADAER 61

Query: 53 AVYELNGKSLLGERVTVEIAKGI 75
          A+ EL+GK ++G  + +   K +
Sbjct: 62 ALDELDGKDVMGYELKLGWGKAV 84

This subgroup corresponds to the RRM of SR140 (also termed U2 snRNP-associated SURP motif-containing protein orU2SURP, or 140 kDa Ser/Arg-rich domain protein) which is a putative splicing factor mainly found in higher eukaryotes. Although it is initially identified as one of the 17S U2 snRNP-associated proteins, the molecular and physiological function of SR140 remains unclear. SR140 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a SWAP/SURP domain that is found in a number of pre-mRNA splicing factors in the middle region, and a C-terminal arginine/serine-rich domain (RS domain). Length = 84

>gnl|CDD|241125 cd12681, RRM_SKAR, RNA recognition motif in S6K1 Aly/REF-like target (SKAR) and similar proteins

 Score = 36.1 bits (84), Expect = 0.002
 Identities = 18/68 (26%), Positives = 31/68 (45%), Gaps = 2/68 (2%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
            RL+V NL   V+  D+ +    +G +    A         V +    D   A+DK +N 
Sbjct: 1   TRLVVSNLHPSVTEDDIVELFSAIGAL--KRARLVRPGVAEVVYVRKDDALTAIDKYNNR 58

Query: 174 ELNGRRIR 181
           EL+G+ ++
Sbjct: 59  ELDGQPMK 66

This subgroup corresponds to the RRM of SKAR, also termed polymerase delta-interacting protein 3 (PDIP3), 46 kDa DNA polymerase delta interaction protein (PDIP46), belonging to the Aly/REF family of RNA binding proteins that have been implicated in coupling transcription with pre-mRNA splicing and nucleo-cytoplasmic mRNA transport. SKAR is widely expressed and localizes to the nucleus. It may be a critical player in the function of S6K1 in cell and organism growth control by binding the activated, hyperphosphorylated form of S6K1 but not S6K2. Furthermore, SKAR functions as a protein partner of the p50 subunit of DNA polymerase delta. In addition, SKAR may have particular importance in pancreatic beta cell size determination and insulin secretion. SKAR contains a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). Length = 69

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

 Score = 36.0 bits (84), Expect = 0.002
 Identities = 22/73 (30%), Positives = 40/73 (54%), Gaps = 9/73 (12%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAVYEL 57
          V++G LP+ + E +L K  +  G +  V I+++       GFG+V F+  +D+     +L
Sbjct: 2  VFVGNLPFDIEEEELRKHFEDCGDVEAVRIVRDRKTGIGKGFGYVLFKT-KDSVALALKL 60

Query: 58 NGKSLLGERVTVE 70
          NG  L G ++ V+
Sbjct: 61 NGIKLKGRKIRVK 73

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

>gnl|CDD|240822 cd12376, RRM2_Hu_like, RNA recognition motif 2 in the Hu proteins family, Drosophila sex-lethal (SXL), and similar proteins

 Score = 36.1 bits (83), Expect = 0.002
 Identities = 26/79 (32%), Positives = 44/79 (55%), Gaps = 10/79 (12%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRI------RDVI--LKNGFGFVEFEDYRDADDAVY 55
            +Y+ GLP  + +++LE+    YGRI      RD +  +  G GF+ F+   +A++A+ 
Sbjct: 1  ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILRDQLTGVSRGVGFIRFDKRIEAEEAIK 60

Query: 56 ELNGKSLLG--ERVTVEIA 72
           LNG+   G  E +TV+ A
Sbjct: 61 GLNGQKPEGASEPITVKFA 79

This subfamily corresponds to the RRM2 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 the ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. 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. Also included in this subfamily is 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 also to its own pre-mRNA and promotes female-specific alternative splicing. SXL contains an N-terminal Gly/Asn-rich domain that may be responsible for the protein-protein interaction, and tandem RRMs that show high preference to bind single-stranded, uridine-rich target RNA transcripts. . Length = 79

>gnl|CDD|241110 cd12666, RRM2_RAVER2, RNA recognition motif 2 in vertebrate ribonucleoprotein PTB-binding 2 (raver-2)

 Score = 36.0 bits (83), Expect = 0.002
 Identities = 22/68 (32%), Positives = 28/68 (41%), Gaps = 9/68 (13%)

Query: 8  IGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNG 59
          +  LP      + E+ V+ YG I    L          G+GFVE+     A  A  EL G
Sbjct: 4  VTNLPISFTLEEFEELVRAYGNIERCFLVYSEVTGHSKGYGFVEYMKKDSASKARLELLG 63

Query: 60 KSLLGERV 67
          K  LGE  
Sbjct: 64 KQ-LGEST 70

This subgroup corresponds to the RRM2 of raver-2, a novel member of the heterogeneous nuclear ribonucleoprotein (hnRNP) family. It is present in vertebrates and shows high sequence homology to raver-1, a ubiquitously expressed co-repressor of the nucleoplasmic splicing repressor polypyrimidine tract-binding protein (PTB)-directed splicing of select mRNAs. In contrast, raver-2 exerts a distinct spatio-temporal expression pattern during embryogenesis and is mainly limited to differentiated neurons and glia cells. Although it displays nucleo-cytoplasmic shuttling in heterokaryons, raver2 localizes to the nucleus in glia cells and neurons. Raver-2 can interact with PTB and may participate in PTB-mediated RNA-processing. However, there is no evidence indicating that raver-2 can bind to cytoplasmic proteins. Raver-2 contains three N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two putative nuclear localization signals (NLS) at the N- and C-termini, a central leucine-rich region, and a C-terminal region harboring two [SG][IL]LGxxP motifs. Raver-2 binds to PTB through the SLLGEPP motif only, and binds to RNA through its RRMs. . Length = 77

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

 Score = 36.1 bits (84), Expect = 0.002
 Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 2/34 (5%)

Query: 29 RIRDVI--LKNGFGFVEFEDYRDADDAVYELNGK 60
           IR+       G+GFVEF  +  A+ A+  LNGK
Sbjct: 31 IIRNKQTGKSAGYGFVEFATHEAAEQALQSLNGK 64

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

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

 Score = 35.9 bits (83), Expect = 0.002
 Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 11/75 (14%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYEL 57
          +++G L +   E +L       GRIR V +          GF FV+FE+   A +A   L
Sbjct: 1  LFVGNLSFETTEDELRAHFGRVGRIRRVRMMTFEDSGKCKGFAFVDFEEIEFATNA---L 57

Query: 58 NGKSLLGERVTVEIA 72
           GK L G  + VE  
Sbjct: 58 KGKHLNGRALRVEYG 72

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

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

 Score = 36.0 bits (84), Expect = 0.002
 Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 13/81 (16%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN------------GFGFVEFEDYRDA 50
          T +++  L +   E  L+K  +  G +R V I K             G+GFVEF+    A
Sbjct: 1  TTLFVKNLNFKTTEETLKKHFEKCGGVRSVTIAKKKDPKGPGKLLSMGYGFVEFKSKEAA 60

Query: 51 DDAVYELNGKSLLGERVTVEI 71
            A+  L G  L G  + +++
Sbjct: 61 QKALKRLQGTVLDGHALELKL 81

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

>gnl|CDD|240825 cd12379, RRM2_I_PABPs, RNA recognition motif 2 found in type I polyadenylate-binding proteins

 Score = 36.0 bits (84), Expect = 0.002
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 38 GFGFVEFEDYRDADDAVYELNGKSLLGERVTV 69
          G+GFV FE    A  A+ ++NG  L  ++V V
Sbjct: 44 GYGFVHFETEEAAVRAIEKVNGMLLNDKKVFV 75

This subfamily corresponds to the RRM2 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in the regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is a ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. Moreover, PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammalian, such as ovary and testis. It may play an important role in germ cell development. Unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes the yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 77

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

 Score = 36.0 bits (84), Expect = 0.002
 Identities = 19/80 (23%), Positives = 31/80 (38%), Gaps = 18/80 (22%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNG-------------FGFVEFEDYRDAD 51
          ++Y+G LP G+ E +L  F         +    G             F FVEF   R  +
Sbjct: 3  RLYVGNLPPGITEEELVDFFNQAMLAAGLNQAPGNPVLSVQINPEKNFAFVEF---RTVE 59

Query: 52 DAV--YELNGKSLLGERVTV 69
          +A     L+G    G+ + +
Sbjct: 60 EATAALALDGIIFKGQPLKI 79

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

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

 Score = 35.8 bits (82), Expect = 0.002
 Identities = 15/49 (30%), Positives = 27/49 (55%), Gaps = 8/49 (16%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFE 45
          K+++GGL       D++++ + +G++ D +L          GFGFV FE
Sbjct: 5  KIFVGGLSANTVVEDVKQYFEQFGKVEDAMLMFDKTTNRHRGFGFVTFE 53

This subgroup corresponds to the RRM2 of Musashi-2 (also termed Msi2) which has been identified as a regulator of the hematopoietic stem cell (HSC) compartment and of leukemic stem cells after transplantation of cells with loss and gain of function of the gene. It influences proliferation and differentiation of HSCs and myeloid progenitors, and further modulates normal hematopoiesis and promotes aggressive myeloid leukemia. Musashi-2 contains two conserved N-terminal tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), along with other domains of unknown function. . Length = 79

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

 Score = 35.6 bits (83), Expect = 0.003
 Identities = 18/67 (26%), Positives = 37/67 (55%), Gaps = 4/67 (5%)

Query: 118 VENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           V+NL   +  + LK+   + G++  A    D   + +  G V FE+    +KA+++L+  
Sbjct: 6   VKNLGEDMDDEKLKELFGKYGKITSAKVMKDDEGKSKGFGFVNFENHEAAQKAVEELNGK 65

Query: 174 ELNGRRI 180
           E+NG+++
Sbjct: 66  EVNGKKL 72

This subfamily corresponds to the RRM3 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in the regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is an ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammalian, such as ovary and testis. It may play an important role in germ cell development. Moreover, unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes the yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 80

>gnl|CDD|240811 cd12365, RRM_RNPS1, RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins

 Score = 35.2 bits (82), Expect = 0.003
 Identities = 11/33 (33%), Positives = 19/33 (57%)

Query: 149 HRNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
            R    VEFES  D +KA+  +D  +++G+ + 
Sbjct: 39  PRGYAYVEFESPEDAEKAIKHMDGGQIDGQEVT 71

This subfamily corresponds to the RRM of RNPS1 and its eukaryotic homologs. RNPS1, also termed RNA-binding protein prevalent during the S phase, or SR-related protein LDC2, was originally characterized as a general pre-mRNA splicing activator, which activates both constitutive and alternative splicing of pre-mRNA in vitro.It has been identified as a protein component of the splicing-dependent mRNP complex, or exon-exon junction complex (EJC), and is directly involved in mRNA surveillance. Furthermore, RNPS1 is a splicing regulator whose activator function is controlled in part by CK2 (casein kinase II) protein kinase phosphorylation. It can also function as a squamous-cell carcinoma antigen recognized by T cells-3 (SART3)-binding protein, and is involved in the regulation of mRNA splicing. RNPS1 contains an N-terminal serine-rich (S) domain, a central RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and the C-terminal arginine/serine/proline-rich (RS/P) domain. . Length = 73

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

 Score = 35.4 bits (82), Expect = 0.003
 Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 6/73 (8%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFESSSDMKKALDK 169
           RLIV+NL   +    L+      G +      Y     + R  G V +++  + +KAL  
Sbjct: 2   RLIVKNLPKGIKEDKLRKLFEAFGTITDVQLKY-TKDGKFRKFGFVGYKTEEEAQKALKH 60

Query: 170 LDNAELNGRRIRL 182
            +N+ ++  +I +
Sbjct: 61  FNNSFIDTSKITV 73

This subgroup corresponds to the RRM1 of RBM19, also termed RNA-binding domain-1 (RBD-1), a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. RBM19 has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 76

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

 Score = 35.3 bits (82), Expect = 0.003
 Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 4/72 (5%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKL 170
           +LIV N+    + ++L++     G+V      K     HR    VEF +  + + A++ L
Sbjct: 2   KLIVRNVPFEATKKELRELFSPFGQVKSVRLPKKFDGSHRGFAFVEFVTKQEAQNAMEAL 61

Query: 171 DNAELNGRRIRL 182
            +  L GR + L
Sbjct: 62  KSTHLYGRHLVL 73

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

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

 Score = 38.3 bits (89), Expect = 0.003
 Identities = 20/76 (26%), Positives = 41/76 (53%), Gaps = 8/76 (10%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAVYE 56
           ++YIG LP  + E  +++ ++ +G ++   ++K+       G+ F E++D    D A+  
Sbjct: 297 RIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAA 356

Query: 57  LNGKSLLGERVTVEIA 72
           LNGK     ++ V+ A
Sbjct: 357 LNGKDTGDNKLHVQRA 372

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

>gnl|CDD|241202 cd12758, RRM1_hnRPDL, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein D-like (hnRNP D-like or hnRNP DL) and similar proteins

 Score = 35.7 bits (82), Expect = 0.003
 Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 9/77 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
          K++IGGL +   ++DL +++  +G + D  +K         GFGFV F+D     D V E
Sbjct: 1  KMFIGGLSWDTSKKDLTEYLSRFGEVLDCTIKTDPVTGRSRGFGFVLFKDAASV-DKVLE 59

Query: 57 LNGKSLLGERVTVEIAK 73
          L    L G+ +  + AK
Sbjct: 60 LKEHKLDGKLIDPKRAK 76

This subgroup corresponds to the RRM1 of hnRNP DL (or hnRNP D-like), also termed AU-rich element RNA-binding factor, or JKT41-binding protein (protein laAUF1 or JKTBP), which is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. hnRNP DL binds single-stranded DNA (ssDNA) or double-stranded DNA (dsDNA) in a non-sequencespecific manner, and interacts with poly(G) and poly(A) tenaciously. It contains two putative two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glycine- and tyrosine-rich C-terminus. . Length = 76

>gnl|CDD|240816 cd12370, RRM1_PUF60, RNA recognition motif 1 in (U)-binding-splicing factor PUF60 and similar proteins

 Score = 35.5 bits (82), Expect = 0.003
 Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 8/73 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYE 56
          +VY+G + + + E  + +    +G I+ + +          GF FVE+E    A  A+ +
Sbjct: 2  RVYVGSISFELGEDTIRQAFSPFGPIKSIDMSWDPVTMKHKGFAFVEYEVPEAAQLALEQ 61

Query: 57 LNGKSLLGERVTV 69
          +NG  L G  + V
Sbjct: 62 MNGVMLGGRNIKV 74

This subfamily corresponds to the RRM1 of PUF60, also termed FUSE-binding protein-interacting repressor (FBP-interacting repressor or FIR), or Ro-binding protein 1 (RoBP1), or Siah-binding protein 1 (Siah-BP1). PUF60 is an essential splicing factor that functions as a poly-U RNA-binding protein required to reconstitute splicing in depleted nuclear extracts. Its function is enhanced through interaction with U2 auxiliary factor U2AF65. PUF60 also controls human c-myc gene expression by binding and inhibiting the transcription factor far upstream sequence element (FUSE)-binding-protein (FBP), an activator of c-myc promoters. PUF60 contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors another RRM and binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) in several nuclear proteins. Research indicates that PUF60 binds FUSE as a dimer, and only the first two RRM domains participate in the single-stranded DNA recognition. . Length = 76

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

 Score = 35.4 bits (82), Expect = 0.003
 Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 6/70 (8%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVC----YADAH-KRHRNEGVVEFESSSDMKKALDKL 170
           L V NL    + +DL    +  G         D    + +    VEF+++  M KAL KL
Sbjct: 3   LFVGNLPYDTTAEDLLAHFKNAGAPPSVRLLTDKKTGKSKGCAFVEFDTAEAMTKAL-KL 61

Query: 171 DNAELNGRRI 180
            +  L GR+I
Sbjct: 62  HHTLLKGRKI 71

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

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

 Score = 35.6 bits (82), Expect = 0.003
 Identities = 18/50 (36%), Positives = 30/50 (60%), Gaps = 8/50 (16%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRD-VILKN-------GFGFVEFED 46
          K+++GGL +   +  L ++   YG + D VI+K+       GFGFV+F+D
Sbjct: 1  KLFVGGLSWETTQETLRRYFSQYGEVVDCVIMKDKTTNRSRGFGFVKFKD 50

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

>gnl|CDD|240867 cd12421, RRM1_PTBP1_hnRNPL_like, RNA recognition motif in polypyrimidine tract-binding protein 1 (PTB or hnRNP I), heterogeneous nuclear ribonucleoprotein L (hnRNP-L), and similar proteins

 Score = 35.3 bits (82), Expect = 0.003
 Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 2/47 (4%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFG--FVEFEDYRDA 50
          +++  LP  V E DL   V  +G++ +V+L  G     VE +    A
Sbjct: 2  LHLRNLPPDVTESDLIALVSPFGKVTNVLLLRGKNQALVEMDSVESA 48

This subfamily corresponds to the RRM1 of the majority of family members that include polypyrimidine tract-binding protein 1 (PTB or hnRNP I), polypyrimidine tract-binding protein 2 (PTBP2 or nPTB), regulator of differentiation 1 (Rod1), heterogeneous nuclear ribonucleoprotein L (hnRNP-L), heterogeneous nuclear ribonucleoprotein L-like (hnRNP-LL), polypyrimidine tract-binding protein homolog 3 (PTBPH3), polypyrimidine tract-binding protein homolog 1 and 2 (PTBPH1 and PTBPH2), and similar proteins. PTB is an important negative regulator of alternative splicing in mammalian cells and also functions at several other aspects of mRNA metabolism, including mRNA localization, stabilization, polyadenylation, and translation. PTBP2 is highly homologous to PTB and is perhaps specific to the vertebrates. Unlike PTB, PTBP2 is enriched in the brain and in some neural cell lines. It binds more stably to the downstream control sequence (DCS) RNA than PTB does but is a weaker repressor of splicing in vitro. PTBP2 also greatly enhances the binding of two other proteins, heterogeneous nuclear ribonucleoprotein (hnRNP) H and KH-type splicing-regulatory protein (KSRP), to the DCS RNA. The binding properties of PTBP2 and its reduced inhibitory activity on splicing imply roles in controlling the assembly of other splicing-regulatory proteins. Rod1 is a mammalian polypyrimidine tract binding protein (PTB) homolog of a regulator of differentiation in the fission yeast Schizosaccharomyces pombe, where the nrd1 gene encodes an RNA binding protein negatively regulates the onset of differentiation. ROD1 is predominantly expressed in hematopoietic cells or organs. It might play a role controlling differentiation in mammals. hnRNP-L is a higher eukaryotic specific subunit of human KMT3a (also known as HYPB or hSet2) complex required for histone H3 Lys-36 trimethylation activity. It plays both, nuclear and cytoplasmic, roles in mRNA export of intronless genes, IRES-mediated translation, mRNA stability, and splicing. hnRNP-LL protein plays a critical and unique role in the signal-induced regulation of CD45 and acts as a global regulator of alternative splicing in activated T cells. The family also includes polypyrimidine tract binding protein homolog 3 (PTBPH3) found in plant. Although its biological roles remain unclear, PTBPH3 shows significant sequence similarity to other family members, all of which contain four RNA recognition motifs (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain). Although their biological roles remain unclear, both PTBPH1 and PTBPH2 show significant sequence similarity to PTB. However, in contrast to PTB, they have three RRMs. In addition, this family also includes RNA-binding motif protein 20 (RBM20) that is an alternative splicing regulator associated with dilated cardiomyopathy (DCM) and contains only one RRM. . Length = 74

>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional

 Score = 38.6 bits (90), Expect = 0.003
 Identities = 29/88 (32%), Positives = 35/88 (39%), Gaps = 4/88 (4%)

Query: 176 NGRRIRLIEDKPRGGGRGRSRS---SSSRSRSK-SRSRSRSSKSRSPRSRSKSGSPRKSK 231
           NG   R          R RS S   SS  S    S  R+ SS S S  S S S S     
Sbjct: 276 NGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRESSSSSTSSSSES 335

Query: 232 SKAKSVSRSPSPSKTRKRSRSRSDSRAR 259
           S+  +VS  PSPS++   SR    +   
Sbjct: 336 SRGAAVSPGPSPSRSPSPSRPPPPADPS 363

Length = 1352

>gnl|CDD|240863 cd12417, RRM_SAFB_like, RNA recognition motif in the scaffold attachment factor (SAFB) family

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 22/71 (30%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE-----GVVEFESSSDMKKALDKL 170
           L V  LSS     DLK    + G+V  A      R+      G V   S  +  K +  L
Sbjct: 2   LWVSGLSSTTKAADLKQLFSKYGKVVGAKIVTNARSPGARCFGFVTMASVEEAAKCIQHL 61

Query: 171 DNAELNGRRIR 181
              EL+GR I 
Sbjct: 62  HRTELHGRVIS 72

This subfamily corresponds to the RRM domain of the SAFB family, including scaffold attachment factor B1 (SAFB1), scaffold attachment factor B2 (SAFB2), SAFB-like transcriptional modulator (SLTM), and similar proteins, which are ubiquitously expressed. SAFB1, SAFB2 and SLTM have been implicated in many diverse cellular processes including cell growth and transformation, stress response, and apoptosis. They share high sequence similarities and all contain a scaffold attachment factor-box (SAF-box, also known as SAP domain) DNA-binding motif, an RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a region rich in glutamine and arginine residues. SAFB1 is a nuclear protein with a distribution similar to that of SLTM, but unlike that of SAFB2, which is also found in the cytoplasm. To a large extent, SAFB1 and SLTM might share similar functions, such as the inhibition of an oestrogen reporter gene. The additional cytoplasmic localization of SAFB2 implies that it could play additional roles in the cytoplasmic compartment which are distinct from the nuclear functions shared with SAFB1 and SLTM. . Length = 74

>gnl|CDD|240805 cd12359, RRM2_VICKZ, RNA recognition motif 2 in the VICKZ family proteins

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 5/72 (6%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRD---VILKNGFG--FVEFEDYRDADDAVYELN 58
           K+ I  +P  VR  DL+  +  YG +++   V  K+      V +E    A  AV +LN
Sbjct: 1  RKIQISNIPPHVRWEDLDSLLSTYGTVKNCEQVPTKSETATVNVTYESPEQAQQAVNKLN 60

Query: 59 GKSLLGERVTVE 70
          G    G ++ V 
Sbjct: 61 GHEYEGSKLKVS 72

This subfamily corresponds to the RRM2 of IGF-II mRNA-binding proteins (IGF2BPs or IMPs) in the VICKZ family that have been implicated in the post-transcriptional regulation of several different RNAs and in subcytoplasmic localization of mRNAs during embryogenesis. IGF2BPs are composed of two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and four hnRNP K homology (KH) domains. . Length = 76

>gnl|CDD|240866 cd12420, RRM_RBPMS_like, RNA recognition motif in RNA-binding protein with multiple splicing (RBP-MS)-like proteins

 Score = 35.3 bits (82), Expect = 0.003
 Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 11/64 (17%)

Query: 6  VYIGGLPYGVRERDLE---KFVKGYGRIRDVILKNG-------FGFVEFEDYRDADDAVY 55
          +++ GLP  V+ER+L    +   GY   R ++ K          GFV+F   + A  A+ 
Sbjct: 3  LFVSGLPSDVKERELAHLFRPFPGYEASR-LVFKEKKGGEKQPVGFVDFSSAQCAAAAMD 61

Query: 56 ELNG 59
           L G
Sbjct: 62 ALQG 65

This subfamily corresponds to the RRM of RNA-binding proteins with multiple splicing (RBP-MS)-like proteins, including protein products of RBPMS genes (RBP-MS and its paralogue RBP-MS2), the Drosophila couch potato (cpo), and Caenorhabditis elegans Mec-8 genes. RBP-MS may be involved in regulation of mRNA translation and localization during Xenopus laevis development. It has also been shown to physically interact with Smad2, Smad3 and Smad4, and stimulates Smad-mediated transactivation. Cpo may play an important role in regulating normal function of the nervous system, whereas mutations in Mec-8 affect mechanosensory and chemosensory neuronal function. All members contain a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). Some uncharacterized family members contain two RRMs; this subfamily includes their RRM1. Their RRM2 shows high sequence homology to the RRM of yeast proteins scw1, Whi3, and Whi4. Length = 79

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

 Score = 34.9 bits (81), Expect = 0.004
 Identities = 26/71 (36%), Positives = 33/71 (46%), Gaps = 8/71 (11%)

Query: 10 GLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKS 61
          GL     ERDL +    YG I  V +          GFGFV FE   DA +A   LNG  
Sbjct: 6  GLSLYTTERDLREVFSRYGPIEKVQVVYDQKTGRSRGFGFVYFESVEDAKEAKERLNGME 65

Query: 62 LLGERVTVEIA 72
          + G R+ V+ +
Sbjct: 66 IDGRRIRVDYS 76

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

>gnl|CDD|240808 cd12362, RRM3_CELF1-6, RNA recognition motif 3 in CELF/Bruno-like family of RNA binding proteins CELF1, CELF2, CELF3, CELF4, CELF5, CELF6 and similar proteins

 Score = 34.9 bits (81), Expect = 0.004
 Identities = 11/33 (33%), Positives = 20/33 (60%)

Query: 38 GFGFVEFEDYRDADDAVYELNGKSLLGERVTVE 70
           FGFV +++   A  A+  +NG  + G+R+ V+
Sbjct: 41 CFGFVSYDNPESAQAAIKAMNGFQVGGKRLKVQ 73

This subgroup corresponds to the RRM3 of the CUGBP1 and ETR-3-like factors (CELF) or BRUNOL (Bruno-like) proteins, a family of structurally related RNA-binding proteins involved in the regulation of pre-mRNA splicing in the nucleus and in the control of mRNA translation and deadenylation in the cytoplasm. The family contains six members: CELF-1 (also termed BRUNOL-2, or CUG-BP1, or NAPOR, or EDEN-BP), CELF-2 (also termed BRUNOL-3, or ETR-3, or CUG-BP2, or NAPOR-2), CELF-3 (also termed BRUNOL-1, or TNRC4, or ETR-1, or CAGH4, or ER DA4), CELF-4 (also termed BRUNOL-4), CELF-5 (also termed BRUNOL-5), CELF-6 (also termed BRUNOL-6). They all contain three highly conserved RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains): two consecutive RRMs (RRM1 and RRM2) situated in the N-terminal region followed by a linker region and the third RRM (RRM3) close to the C-terminus of the protein. The low sequence conservation of the linker region is highly suggestive of a large variety in the co-factors that associate with the various CELF family members. Based on both sequence similarity and function, the CELF family can be divided into two subfamilies, the first containing CELFs 1 and 2, and the second containing CELFs 3, 4, 5, and 6. The different CELF proteins may act through different sites on at least some substrates. Furthermore, CELF proteins may interact with each other in varying combinations to influence alternative splicing in different contexts. . Length = 73

>gnl|CDD|241064 cd12620, RRM3_TIAR, RNA recognition motif 3 in nucleolysin TIAR and similar proteins

 Score = 35.0 bits (80), Expect = 0.004
 Identities = 18/64 (28%), Positives = 34/64 (53%), Gaps = 2/64 (3%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRD--VILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
          VY GG+  G+ E+ + +    +G+I +  V  + G+ F+ F  +  A  A+  +NG ++ 
Sbjct: 3  VYCGGIASGLTEQLMRQTFSPFGQIMEIRVFPEKGYSFIRFSTHESAAHAIVSVNGTTIE 62

Query: 64 GERV 67
          G  V
Sbjct: 63 GHVV 66

This subgroup corresponds to the RRM3 of nucleolysin TIAR, also termed TIA-1-related protein, a cytotoxic granule-associated RNA-binding protein that shows high sequence similarity with 40-kDa isoform of T-cell-restricted intracellular antigen-1 (p40-TIA-1). TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. TIAR possesses nucleolytic activity against cytolytic lymphocyte (CTL) target cells. It can trigger DNA fragmentation in permeabilized thymocytes, and thus may function as an effector responsible for inducing apoptosis. TIAR is composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. It interacts with RNAs containing short stretches of uridylates and its RRM2 can mediate the specific binding to uridylate-rich RNAs. . Length = 73

>gnl|CDD|241119 cd12675, RRM2_Nop4p, RNA recognition motif 2 in yeast nucleolar protein 4 (Nop4p) and similar proteins

 Score = 35.2 bits (81), Expect = 0.004
 Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 8/76 (10%)

Query: 5  KVYIGGLPYGVRE-RDLEKFVKGYGRIRDVILKN-------GFGFVEFEDYRDADDAVYE 56
          K+ I  LP+ +++   L+K    YG++R+  +         GF FV  +  ++A+ A+  
Sbjct: 2  KLIIRNLPWSIKKPVKLKKIFGRYGKVREATIPRKRGGKLCGFAFVTMKKRKNAEIALEN 61

Query: 57 LNGKSLLGERVTVEIA 72
           NG  + G  V V+ A
Sbjct: 62 TNGLEIDGRPVAVDWA 77

This subgroup corresponds to the RRM2 of Nop4p (also known as Nop77p), encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 83

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	262
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	100.0
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.98
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.97
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.97
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.97
KOG0109|consensus	346		99.97
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.97
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.96
KOG0148|consensus	321		99.96
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.96
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.96
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.96
KOG0117|consensus	506		99.96
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.95
KOG0131|consensus	203		99.95
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.95
KOG0105|consensus	241		99.95
KOG0106|consensus	216		99.95
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.94
KOG0144|consensus	510		99.94
KOG0145|consensus	360		99.94
KOG0127|consensus	678		99.94
KOG0145|consensus	360		99.93
KOG0107|consensus	195		99.93
KOG0127|consensus	678		99.92
KOG0124|consensus	544		99.92
KOG0107|consensus	195		99.91
KOG0110|consensus	725		99.91
KOG4206|consensus	221		99.89
KOG0146|consensus	371		99.89
KOG0123|consensus	369		99.89
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.86
KOG0123|consensus	369		99.86
KOG0144|consensus	510		99.85
KOG0147|consensus	549		99.85
KOG4207|consensus	256		99.84
KOG4205|consensus	311		99.84
KOG0147|consensus	549		99.84
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.82
KOG0148|consensus	321		99.81
KOG4676|consensus	479		99.81
KOG4207|consensus	256		99.81
KOG1457|consensus	284		99.79
KOG1190|consensus	492		99.78
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.76
KOG4211|consensus	510		99.76
KOG0110|consensus	725		99.76
KOG1548|consensus	382		99.75
KOG0113|consensus	335		99.74
KOG4212|consensus	608		99.74
PLN03120	260	nucleic acid binding protein; Provisional	99.73
KOG0121|consensus	153		99.73
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.72
KOG0113|consensus	335		99.71
KOG1190|consensus	492		99.71
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.68
KOG0114|consensus	124		99.67
KOG0124|consensus	544		99.66
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.64
PLN03121	243	nucleic acid binding protein; Provisional	99.64
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.63
KOG0120|consensus	500		99.63
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.61
KOG0130|consensus	170		99.61
PLN03213	759	repressor of silencing 3; Provisional	99.6
KOG0105|consensus	241		99.6
KOG0122|consensus	270		99.6
KOG0125|consensus	376		99.59
KOG1456|consensus	494		99.56
KOG0129|consensus	520		99.56
KOG0117|consensus	506		99.56
smart00362	72	RRM_2 RNA recognition motif.	99.56
KOG1456|consensus	494		99.55
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.54
KOG4212|consensus	608		99.53
KOG0149|consensus	247		99.52
KOG0125|consensus	376		99.51
KOG0109|consensus	346		99.5
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.5
KOG0126|consensus	219		99.5
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.49
KOG0111|consensus	298		99.48
PLN03120	260	nucleic acid binding protein; Provisional	99.46
smart00360	71	RRM RNA recognition motif.	99.45
KOG0122|consensus	270		99.45
KOG0130|consensus	170		99.45
KOG0120|consensus	500		99.45
KOG1365|consensus	508		99.44
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.43
KOG0114|consensus	124		99.41
KOG0121|consensus	153		99.4
PLN03213	759	repressor of silencing 3; Provisional	99.39
KOG0132|consensus	894		99.38
KOG0108|consensus	435		99.37
PLN03121	243	nucleic acid binding protein; Provisional	99.36
smart00362	72	RRM_2 RNA recognition motif.	99.35
KOG4211|consensus	510		99.34
KOG4660|consensus	549		99.34
KOG0111|consensus	298		99.31
KOG0415|consensus	479		99.3
KOG2193|consensus	584		99.3
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.28
KOG4454|consensus	267		99.28
KOG0131|consensus	203		99.25
smart00361	70	RRM_1 RNA recognition motif.	99.23
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.23
KOG0146|consensus	371		99.22
smart00360	71	RRM RNA recognition motif.	99.2
KOG0149|consensus	247		99.19
KOG0153|consensus	377		99.18
KOG0112|consensus	975		99.18
KOG0415|consensus	479		99.16
KOG0126|consensus	219		99.14
KOG0108|consensus	435		99.09
KOG4208|consensus	214		99.09
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.08
KOG4206|consensus	221		99.06
KOG0128|consensus	881		99.06
KOG0533|consensus	243		99.04
KOG4210|consensus	285		99.02
KOG0116|consensus	419		99.01
smart00361	70	RRM_1 RNA recognition motif.	99.01
KOG0106|consensus	216		99.0
KOG4661|consensus	940		98.98
KOG0151|consensus	877		98.96
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.96
KOG4307|consensus	944		98.89
KOG4307|consensus	944		98.88
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	98.87
KOG4205|consensus	311		98.8
KOG0132|consensus	894		98.75
KOG1365|consensus	508		98.71
KOG4209|consensus	231		98.66
KOG0153|consensus	377		98.64
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	98.64
KOG0116|consensus	419		98.63
KOG4661|consensus	940		98.62
KOG0533|consensus	243		98.62
KOG4208|consensus	214		98.6
KOG1457|consensus	284		98.6
KOG4660|consensus	549		98.58
KOG0226|consensus	290		98.49
KOG4676|consensus	479		98.47
KOG4454|consensus	267		98.39
KOG2202|consensus	260		98.36
KOG1548|consensus	382		98.35
KOG0151|consensus	877		98.33
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	98.32
KOG2416|consensus	718		98.25
KOG0226|consensus	290		98.21
COG5175	480	MOT2 Transcriptional repressor [Transcription]	98.19
KOG4209|consensus	231		98.18
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.17
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	98.1
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	98.07
KOG3152|consensus	278		98.05
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	97.98
KOG0128|consensus	881		97.93
KOG1995|consensus	351		97.93
KOG1855|consensus	484		97.86
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	97.85
KOG0112|consensus	975		97.83
KOG4210|consensus	285		97.68
KOG4849|consensus	498		97.66
KOG1996|consensus	378		97.65
KOG2202|consensus	260		97.64
KOG2314|consensus	698		97.64
KOG0115|consensus	275		97.62
KOG0129|consensus	520		97.61
KOG1995|consensus	351		97.6
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	97.52
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.51
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	97.47
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.45
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	97.36
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	97.34
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	97.33
KOG3152|consensus	278		97.3
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	97.16
KOG2314|consensus	698		97.11
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.95
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	96.93
KOG2416|consensus	718		96.85
KOG1855|consensus	484		96.75
KOG1996|consensus	378		96.65
KOG0115|consensus	275		96.65
KOG2068|consensus	327		96.48
KOG2591|consensus	684		96.39
KOG4285|consensus	350		96.36
KOG0835|consensus	367		96.32
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	96.26
KOG4849|consensus	498		96.13
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	96.1
KOG2253|consensus	668		95.96
KOG2193|consensus	584		95.89
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	95.81
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	95.75
KOG2591|consensus	684		95.66
KOG2135|consensus	526		95.53
KOG0804|consensus	493		94.8
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	94.75
KOG2135|consensus	526		94.26
KOG2253|consensus	668		93.85
PF14111	153	DUF4283: Domain of unknown function (DUF4283)	93.85
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	93.12
KOG4285|consensus	350		92.96
PF07292	88	NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909	92.95
KOG4574|consensus	1007		92.91
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	92.63
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	92.24
KOG2068|consensus	327		92.2
KOG2318|consensus	650		91.84
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	88.93
KOG4410|consensus	396		88.74
KOG0804|consensus	493		87.27
KOG2295|consensus	648		85.98
COG2608	71	CopZ Copper chaperone [Inorganic ion transport and	85.22
KOG4365|consensus	572		85.21
KOG2891|consensus	445		84.74
KOG4574|consensus	1007		84.32
PF03468	116	XS: XS domain; InterPro: IPR005380 The XS (rice ge	83.58
KOG1295|consensus	376		82.53
PRK11634	629	ATP-dependent RNA helicase DeaD; Provisional	82.2
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	81.44
PF15513	62	DUF4651: Domain of unknown function (DUF4651)	81.13
KOG4483|consensus	528		80.84

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=100.00  E-value=1.5e-33  Score=228.61  Aligned_cols=155  Identities=23%  Similarity=0.397  Sum_probs=136.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .|+|||+|||+++|+++|+++|+.||+|++|+|.        +|||||+|.++++|+.||+.|++..|.++.|.|.++.+
T Consensus       107 ~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p  186 (346)
T TIGR01659       107 GTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARP  186 (346)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccc
Confidence            5899999999999999999999999999999883        58999999999999999999999999999999998764


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~  149 (262)
                      ....                                ....+|||+|||..+++++|+++|++||.|..+.+.     +.+
T Consensus       187 ~~~~--------------------------------~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~  234 (346)
T TIGR01659       187 GGES--------------------------------IKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTP  234 (346)
T ss_pred             cccc--------------------------------cccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCcc
Confidence            2110                                113479999999999999999999999999988876     345


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCC--ceEEEeecCCCC
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNG--RRIRLIEDKPRG  189 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g--~~~~v~~~~~~~  189 (262)
                      +++|||+|++.++|++||+.|++..+.+  ..|.|..+....
T Consensus       235 kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~~  276 (346)
T TIGR01659       235 RGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEHG  276 (346)
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCccc
Confidence            6899999999999999999999998876  578888776543

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

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

Probab=99.98  E-value=4.7e-31  Score=224.82  Aligned_cols=165  Identities=22%  Similarity=0.410  Sum_probs=139.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+++++|+++|..||+|..|.|        ++|||||+|.++++|+.||+.|||..|.|+.|.|.+...
T Consensus       107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~  186 (612)
T TIGR01645       107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSN  186 (612)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccccc
Confidence            589999999999999999999999999999998        389999999999999999999999999999999985432


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~  149 (262)
                      ......                     .............+|||+||+..+++++|+++|+.||.|..+.+.     +..
T Consensus       187 ~p~a~~---------------------~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgks  245 (612)
T TIGR01645       187 MPQAQP---------------------IIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGH  245 (612)
T ss_pred             cccccc---------------------ccccccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCc
Confidence            111000                     000001111224689999999999999999999999999999886     346


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +|||||+|.+.++|..|+..||+..++|+.|+|..+.+.
T Consensus       246 KGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~p  284 (612)
T TIGR01645       246 KGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP  284 (612)
T ss_pred             CCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCC
Confidence            899999999999999999999999999999999888753

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.97  E-value=1.3e-29  Score=210.28  Aligned_cols=188  Identities=21%  Similarity=0.331  Sum_probs=140.8

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCC--ceEEEEE
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLG--ERVTVEI   71 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~   71 (262)
                      ..++|||+|||+.+++++|.++|..||.|..+.+.        +|||||+|.+.++|+.|+..|||..+.|  ..|.|.+
T Consensus        88 ~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~  167 (352)
T TIGR01661        88 KGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKF  167 (352)
T ss_pred             ccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence            35789999999999999999999999999888872        6899999999999999999999998877  5788888


Q ss_pred             ccCCCcccccCCCC--------CCC---CC-------CCCCC------------------------------CCCCCCCC
Q psy10320         72 AKGIDRSQERGRRG--------YGS---YR-------APPPR------------------------------RGWGHDRD  103 (262)
Q Consensus        72 ~~~~~~~~~~~~~~--------~~~---~~-------~~~~~------------------------------~~~~~~~~  103 (262)
                      +.............        ...   ..       ..+..                              ........
T Consensus       168 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (352)
T TIGR01661       168 ANNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRASPP  247 (352)
T ss_pred             CCCCCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccCCCc
Confidence            86544211110000        000   00       00000                              00000000


Q ss_pred             ------------CCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHH
Q psy10320        104 ------------DRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKA  166 (262)
Q Consensus       104 ------------~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a  166 (262)
                                  ............|||+|||..+++++|.++|++||.|..+.+.     +.++|||||+|.+.++|..|
T Consensus       248 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~A  327 (352)
T TIGR01661       248 ATDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMA  327 (352)
T ss_pred             cccccccccccCCCCCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHH
Confidence                        0000012234479999999999999999999999999999886     45699999999999999999


Q ss_pred             HHHhCCcccCCceEEEeecCCCC
Q psy10320        167 LDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       167 ~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      +..|||..|+|+.|.|.+...+.
T Consensus       328 i~~lnG~~~~gr~i~V~~~~~~~  350 (352)
T TIGR01661       328 ILSLNGYTLGNRVLQVSFKTNKA  350 (352)
T ss_pred             HHHhCCCEECCeEEEEEEccCCC
Confidence            99999999999999999887653

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.97  E-value=3.6e-30  Score=213.54  Aligned_cols=154  Identities=21%  Similarity=0.369  Sum_probs=135.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|.        +|||||+|.++++|+.||+.|||..|.|+.|.|.++.+
T Consensus         3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~   82 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARP   82 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecc
Confidence            4799999999999999999999999999999983        58999999999999999999999999999999998864


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~  149 (262)
                      ....                                .....|||+|||..+++++|.++|..||.|..+.+.     +..
T Consensus        83 ~~~~--------------------------------~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~  130 (352)
T TIGR01661        83 SSDS--------------------------------IKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLS  130 (352)
T ss_pred             cccc--------------------------------cccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCc
Confidence            3211                                114589999999999999999999999999888775     346


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCC--ceEEEeecCCC
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNG--RRIRLIEDKPR  188 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g--~~~~v~~~~~~  188 (262)
                      +++|||+|++.++|..|+..|+|..+.|  ..|.|.++...
T Consensus       131 ~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~  171 (352)
T TIGR01661       131 KGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNP  171 (352)
T ss_pred             CcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCCC
Confidence            8899999999999999999999999887  45777776543

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

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

Probab=99.97  E-value=9.7e-29  Score=211.39  Aligned_cols=185  Identities=23%  Similarity=0.262  Sum_probs=141.3

Q ss_pred             cceEEEcCCCC-CCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcc
Q psy10320          3 GTKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         3 ~~~l~V~nl~~-~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~   78 (262)
                      +++|||+|||+ .+|+++|+++|+.||.|..|+|.   +|+|||+|.++++|..||..|||..|.|+.|.|.+++.....
T Consensus       275 ~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~~~~  354 (481)
T TIGR01649       275 GSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQNVQ  354 (481)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccccccc
Confidence            47999999998 69999999999999999999984   699999999999999999999999999999999998764322


Q ss_pred             cccCCCCC------CCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCc--eEEEecccC--
Q psy10320         79 QERGRRGY------GSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGE--VCYADAHKR--  148 (262)
Q Consensus        79 ~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~--i~~~~~~~~--  148 (262)
                      ........      ............... .........+..+|||+|||..+++++|+++|+.||.  |..+.+...  
T Consensus       355 ~~~~~~~~~~~~~~~d~~~~~~~r~~~~~-~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~~  433 (481)
T TIGR01649       355 PPREGQLDDGLTSYKDYSSSRNHRFKKPG-SANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKDN  433 (481)
T ss_pred             CCCCCcCcCCCcccccccCCccccCCCcc-cccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCCC
Confidence            11110000      000000101110000 0001111234678999999999999999999999997  777777633  


Q ss_pred             -CCceEEEEecCHHHHHHHHHHhCCcccCCce------EEEeecCCC
Q psy10320        149 -HRNEGVVEFESSSDMKKALDKLDNAELNGRR------IRLIEDKPR  188 (262)
Q Consensus       149 -~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~------~~v~~~~~~  188 (262)
                       .+++|||+|.+.++|..||..|||..+.+..      |+|.+++++
T Consensus       434 ~~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~~~~~~~~lkv~fs~~~  480 (481)
T TIGR01649       434 ERSKMGLLEWESVEDAVEALIALNHHQLNEPNGSAPYHLKVSFSTSR  480 (481)
T ss_pred             CcceeEEEEcCCHHHHHHHHHHhcCCccCCCCCCccceEEEEeccCC
Confidence             3789999999999999999999999999885      899888764

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).

>KOG0109|consensus

Probab=99.97  E-value=2.6e-30  Score=194.74  Aligned_cols=150  Identities=29%  Similarity=0.533  Sum_probs=140.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCccccc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQER   81 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~   81 (262)
                      |+-+|||||||.++++.+|+.+|++||+|.+|.|.|.||||..++...|+.||..|+|..|+|..|.|+.++.+.+.   
T Consensus         1 ~~~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKsk~---   77 (346)
T KOG0109|consen    1 MPVKLFIGNLPREATEQELRSLFEQYGKVLECDIVKNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKSKA---   77 (346)
T ss_pred             CccchhccCCCcccchHHHHHHHHhhCceEeeeeecccceEEeecccccHHHHhhcccceecceEEEEEeccccCCC---
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999876322   


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHH
Q psy10320         82 GRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSS  161 (262)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~  161 (262)
                                                     ..+|+|+|+.+.++.++++..|++||+|..++|.   ++|+||+|+-.+
T Consensus        78 -------------------------------stkl~vgNis~tctn~ElRa~fe~ygpviecdiv---kdy~fvh~d~~e  123 (346)
T KOG0109|consen   78 -------------------------------STKLHVGNISPTCTNQELRAKFEKYGPVIECDIV---KDYAFVHFDRAE  123 (346)
T ss_pred             -------------------------------ccccccCCCCccccCHHHhhhhcccCCceeeeee---cceeEEEEeecc
Confidence                                           4489999999999999999999999999999996   589999999999


Q ss_pred             HHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        162 DMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       162 ~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +|..|+..|++.+|.|+.++|.....+
T Consensus       124 da~~air~l~~~~~~gk~m~vq~stsr  150 (346)
T KOG0109|consen  124 DAVEAIRGLDNTEFQGKRMHVQLSTSR  150 (346)
T ss_pred             chHHHHhcccccccccceeeeeeeccc
Confidence            999999999999999999999877654

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

Probab=99.97  E-value=4.8e-29  Score=213.56  Aligned_cols=163  Identities=26%  Similarity=0.425  Sum_probs=137.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..+|||+|||+.+|+++|+++|+.||.|.+|.|.        +|||||+|.+.++|++|| .|+|..|.|+.|.|.++..
T Consensus        89 ~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al-~l~g~~~~g~~i~v~~~~~  167 (457)
T TIGR01622        89 DRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKAL-ALTGQMLLGRPIIVQSSQA  167 (457)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHH-HhCCCEECCeeeEEeecch
Confidence            4689999999999999999999999999999983        799999999999999999 6999999999999987654


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~  149 (262)
                      ............                    ........+|||+|||..+++++|.++|+.||.|..+.+.     +..
T Consensus       168 ~~~~~~~~~~~~--------------------~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~  227 (457)
T TIGR01622       168 EKNRAAKAATHQ--------------------PGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRS  227 (457)
T ss_pred             hhhhhhhccccc--------------------CCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCcc
Confidence            322111000000                    0000115689999999999999999999999999999877     356


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      +|+|||+|.+.++|..|+..|+|..+.|+.|.|.++.
T Consensus       228 ~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~  264 (457)
T TIGR01622       228 KGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ  264 (457)
T ss_pred             ceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence            7999999999999999999999999999999999865

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=99.96  E-value=1.7e-28  Score=208.88  Aligned_cols=185  Identities=25%  Similarity=0.358  Sum_probs=137.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccC-CceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLL-GERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~-g~~l~v~~~~~   74 (262)
                      +|+|||+|||++++|++|.++|+.||.|.+|+|       ++|||||+|.+.++|+.||+.||+..|. |+.|.|..+..
T Consensus        58 ~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~~  137 (578)
T TIGR01648        58 GCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISVD  137 (578)
T ss_pred             CCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccccc
Confidence            589999999999999999999999999999988       3799999999999999999999998884 67766655432


Q ss_pred             CCc----------cccc---CCCCCCC-----------CCCCCCC-------------------------C--------C
Q psy10320         75 IDR----------SQER---GRRGYGS-----------YRAPPPR-------------------------R--------G   97 (262)
Q Consensus        75 ~~~----------~~~~---~~~~~~~-----------~~~~~~~-------------------------~--------~   97 (262)
                      ...          ....   .......           .......                         .        .
T Consensus       138 ~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~Vd  217 (578)
T TIGR01648       138 NCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVD  217 (578)
T ss_pred             CceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEE
Confidence            110          0000   0000000           0000000                         0        0


Q ss_pred             CCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcC--CceEEEecccCCCceEEEEecCHHHHHHHHHHhCCccc
Q psy10320         98 WGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQV--GEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL  175 (262)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~--g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~  175 (262)
                      |................+|||+||+..+++++|+++|+.|  |.|..+.+.   +++|||+|++.++|.+|++.|||..|
T Consensus       218 wA~p~~~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~---rgfAFVeF~s~e~A~kAi~~lnG~~i  294 (578)
T TIGR01648       218 WAEPEEEVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI---RDYAFVHFEDREDAVKAMDELNGKEL  294 (578)
T ss_pred             eecccccccccccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee---cCeEEEEeCCHHHHHHHHHHhCCCEE
Confidence            0000000001112335689999999999999999999999  999999775   57999999999999999999999999


Q ss_pred             CCceEEEeecCCCCC
Q psy10320        176 NGRRIRLIEDKPRGG  190 (262)
Q Consensus       176 ~g~~~~v~~~~~~~~  190 (262)
                      .|+.|.|.++++...
T Consensus       295 ~Gr~I~V~~Akp~~~  309 (578)
T TIGR01648       295 EGSEIEVTLAKPVDK  309 (578)
T ss_pred             CCEEEEEEEccCCCc
Confidence            999999999987644

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.

>KOG0148|consensus

Probab=99.96  E-value=7.6e-29  Score=185.09  Aligned_cols=168  Identities=20%  Similarity=0.363  Sum_probs=142.8

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      -|||+.|.+.++-++|++.|.+||+|.+++|        +|||+||.|.+.++|+.||+.|||.+|+++.|.-.|+..+.
T Consensus        64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp  143 (321)
T KOG0148|consen   64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKP  143 (321)
T ss_pred             eEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCc
Confidence            4899999999999999999999999999998        38999999999999999999999999999999999998765


Q ss_pred             cccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEE
Q psy10320         77 RSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVE  156 (262)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~  156 (262)
                      .......                ....+-+......+++||++|++..+++++|++.|..||.|..|.+... +||+||.
T Consensus       144 ~e~n~~~----------------ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~-qGYaFVr  206 (321)
T KOG0148|consen  144 SEMNGKP----------------LTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD-QGYAFVR  206 (321)
T ss_pred             cccCCCC----------------ccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc-cceEEEE
Confidence            2211100                0111111222334779999999999999999999999999999999864 6999999


Q ss_pred             ecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        157 FESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       157 f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      |.+.+.|..||..+|+.++.|..++....+...
T Consensus       207 F~tkEaAahAIv~mNntei~G~~VkCsWGKe~~  239 (321)
T KOG0148|consen  207 FETKEAAAHAIVQMNNTEIGGQLVRCSWGKEGD  239 (321)
T ss_pred             ecchhhHHHHHHHhcCceeCceEEEEeccccCC
Confidence            999999999999999999999999987766543

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

Probab=99.96  E-value=6.9e-28  Score=206.16  Aligned_cols=166  Identities=22%  Similarity=0.262  Sum_probs=136.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHh--cCcccCCceEEEEEccCCCcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYEL--NGKSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l--~~~~~~g~~l~v~~~~~~~~~   78 (262)
                      +.+|||+|||+.+|+++|+++|+.||.|..|.|.  ++||||+|.++++|+.|+..|  ++..+.|+.|.|+++......
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~~   81 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIK   81 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcccc
Confidence            5799999999999999999999999999999884  789999999999999999864  678999999999999754322


Q ss_pred             cccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCC-CceEEEEe
Q psy10320         79 QERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRH-RNEGVVEF  157 (262)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~-~~~~~v~f  157 (262)
                      .....   .               ..  .........|+|.||++.+++++|.++|+.||.|..+.+..+. .++|||+|
T Consensus        82 ~~~~~---~---------------~~--~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~~~~afVef  141 (481)
T TIGR01649        82 RDGNS---D---------------FD--SAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNNVFQALVEF  141 (481)
T ss_pred             cCCCC---c---------------cc--CCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCCceEEEEEE
Confidence            11100   0               00  0011123479999999999999999999999999999887443 47899999


Q ss_pred             cCHHHHHHHHHHhCCcccCC--ceEEEeecCCC
Q psy10320        158 ESSSDMKKALDKLDNAELNG--RRIRLIEDKPR  188 (262)
Q Consensus       158 ~~~~~a~~a~~~l~g~~~~g--~~~~v~~~~~~  188 (262)
                      .+.++|.+|++.|||..+.+  +.|+|.++++.
T Consensus       142 ~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk~~  174 (481)
T TIGR01649       142 ESVNSAQHAKAALNGADIYNGCCTLKIEYAKPT  174 (481)
T ss_pred             CCHHHHHHHHHHhcCCcccCCceEEEEEEecCC
Confidence            99999999999999999965  47888887653

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

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

Probab=99.96  E-value=6.8e-28  Score=209.16  Aligned_cols=181  Identities=14%  Similarity=0.212  Sum_probs=135.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcC------------CceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGY------------GRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVT   68 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~------------G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~   68 (262)
                      ..+|||+|||+.+|+++|.++|..|            +.|..+.+.  +|||||+|.++++|..|| .|+|..|.|..|.
T Consensus       175 ~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~kg~afVeF~~~e~A~~Al-~l~g~~~~g~~l~  253 (509)
T TIGR01642       175 ARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKEKNFAFLEFRTVEEATFAM-ALDSIIYSNVFLK  253 (509)
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCCCCEEEEEeCCHHHHhhhh-cCCCeEeeCceeE
Confidence            4689999999999999999999874            345666663  799999999999999999 7999999999999


Q ss_pred             EEEccCCCcccccCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-
Q psy10320         69 VEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHD-RDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-  146 (262)
Q Consensus        69 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-  146 (262)
                      |................    ....+....... .............+|||+|||..+++++|.++|+.||.|..+.+. 
T Consensus       254 v~r~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~  329 (509)
T TIGR01642       254 IRRPHDYIPVPQITPEV----SQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIK  329 (509)
T ss_pred             ecCccccCCccccCCCC----CCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEe
Confidence            97554432111000000    000000000000 000111122345699999999999999999999999999988775 


Q ss_pred             ----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        147 ----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       147 ----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                          +..+|||||+|.+.++|..|+..|+|..++|+.|.|..+...
T Consensus       330 ~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~  375 (509)
T TIGR01642       330 DIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVG  375 (509)
T ss_pred             cCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccC
Confidence                446899999999999999999999999999999999887643

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

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

Probab=99.96  E-value=3.1e-28  Score=213.10  Aligned_cols=155  Identities=24%  Similarity=0.364  Sum_probs=136.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ++|||+|||+++||++|.++|+.||.|..|.|.        +|||||+|.+.++|+.|++.|++..|.|+.|.|.|+...
T Consensus         1 ~sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~   80 (562)
T TIGR01628         1 ASLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRD   80 (562)
T ss_pred             CeEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccccc
Confidence            479999999999999999999999999999983        589999999999999999999999999999999987532


Q ss_pred             CcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCc
Q psy10320         76 DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRN  151 (262)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~  151 (262)
                      ....                              .....+|||+|||.++++++|.++|+.||.|..+.+.    +..+|
T Consensus        81 ~~~~------------------------------~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg  130 (562)
T TIGR01628        81 PSLR------------------------------RSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRG  130 (562)
T ss_pred             cccc------------------------------ccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCccc
Confidence            1110                              0113479999999999999999999999999988876    34689


Q ss_pred             eEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        152 EGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       152 ~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +|||+|.+.++|..|++.|+|..+.|+.|.|....++
T Consensus       131 ~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~~~~~  167 (562)
T TIGR01628       131 YGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGRFIKK  167 (562)
T ss_pred             EEEEEECCHHHHHHHHHHhcccEecCceEEEeccccc
Confidence            9999999999999999999999999999998765543

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

>KOG0117|consensus

Probab=99.96  E-value=5.8e-28  Score=191.98  Aligned_cols=185  Identities=25%  Similarity=0.399  Sum_probs=143.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCccc-CCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSL-LGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~-~g~~l~v~~~~   73 (262)
                      +|-||||.||.++.|++|.-+|++.|+|-++.|+        +|||||.|.+.++|+.||..||+..| .|+.|.|..+.
T Consensus        83 G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sv  162 (506)
T KOG0117|consen   83 GCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSV  162 (506)
T ss_pred             CceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEee
Confidence            6889999999999999999999999999999984        89999999999999999999999987 68888887775


Q ss_pred             CCCc----------cccc-----------------------CCCCCC----------------CCCCCCC--------CC
Q psy10320         74 GIDR----------SQER-----------------------GRRGYG----------------SYRAPPP--------RR   96 (262)
Q Consensus        74 ~~~~----------~~~~-----------------------~~~~~~----------------~~~~~~~--------~~   96 (262)
                      ....          ..+.                       ...+.+                ..-.+..        .-
T Consensus       163 an~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tV  242 (506)
T KOG0117|consen  163 ANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITV  242 (506)
T ss_pred             ecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCccee
Confidence            4311          1100                       000000                0000111        12


Q ss_pred             CCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccC
Q psy10320         97 GWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELN  176 (262)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~  176 (262)
                      .|...........+.....|||.||+.++|++.|+++|++||.|..|..+   +.||||+|.+.++|.+|++.+||++|+
T Consensus       243 dWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~---rDYaFVHf~eR~davkAm~~~ngkeld  319 (506)
T KOG0117|consen  243 DWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKP---RDYAFVHFAEREDAVKAMKETNGKELD  319 (506)
T ss_pred             eccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecc---cceeEEeecchHHHHHHHHHhcCceec
Confidence            22222222222234445789999999999999999999999999999876   569999999999999999999999999


Q ss_pred             CceEEEeecCCCCC
Q psy10320        177 GRRIRLIEDKPRGG  190 (262)
Q Consensus       177 g~~~~v~~~~~~~~  190 (262)
                      |..|.|..++|...
T Consensus       320 G~~iEvtLAKP~~k  333 (506)
T KOG0117|consen  320 GSPIEVTLAKPVDK  333 (506)
T ss_pred             CceEEEEecCChhh
Confidence            99999999887653

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

Probab=99.95  E-value=1.7e-27  Score=208.47  Aligned_cols=172  Identities=25%  Similarity=0.400  Sum_probs=140.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccC----CceEEEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLL----GERVTVEI   71 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~----g~~l~v~~   71 (262)
                      .++|||+|||+.+|+++|+++|+.||+|..+.+.       +|||||+|.+.++|..|++.|+|..|.    |..|.|.+
T Consensus       178 ~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~~  257 (562)
T TIGR01628       178 FTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVGR  257 (562)
T ss_pred             CCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEeec
Confidence            4789999999999999999999999999999883       689999999999999999999999999    99999988


Q ss_pred             ccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----c
Q psy10320         72 AKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----K  147 (262)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~  147 (262)
                      +.................              ...........+|||+||+..+++++|+++|+.||.|..+.+.    +
T Consensus       258 a~~k~er~~~~~~~~~~~--------------~~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g  323 (562)
T TIGR01628       258 AQKRAEREAELRRKFEEL--------------QQERKMKAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKG  323 (562)
T ss_pred             ccChhhhHHHHHhhHHhh--------------hhhhhcccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCC
Confidence            765433211100000000              0000011224589999999999999999999999999999886    4


Q ss_pred             CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        148 RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       148 ~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ..+|+|||+|.+.++|.+|+..|||..++|+.|.|..+..+
T Consensus       324 ~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k  364 (562)
T TIGR01628       324 VSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRK  364 (562)
T ss_pred             CcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccCc
Confidence            56899999999999999999999999999999999887754

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

>KOG0131|consensus

Probab=99.95  E-value=1.7e-27  Score=167.96  Aligned_cols=159  Identities=23%  Similarity=0.302  Sum_probs=139.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..||||+||+..++++.|+++|-+.|+|..+.|+        +|||||+|.++|+|+-|+.-||...+.|++|.|..+..
T Consensus         9 d~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~   88 (203)
T KOG0131|consen    9 DATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASA   88 (203)
T ss_pred             CceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEeccc
Confidence            4799999999999999999999999999999994        79999999999999999999999999999999988762


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEE-e-----cccC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-D-----AHKR  148 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~-~-----~~~~  148 (262)
                      ....                               ...+..|||+||.+.+.+..|.+.|+.||.+... .     ..+.
T Consensus        89 ~~~n-------------------------------l~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~  137 (203)
T KOG0131|consen   89 HQKN-------------------------------LDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGN  137 (203)
T ss_pred             cccc-------------------------------ccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCC
Confidence            2111                               1113589999999999999999999999987653 2     2256


Q ss_pred             CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCCCC
Q psy10320        149 HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGR  192 (262)
Q Consensus       149 ~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~~~  192 (262)
                      +++++||.|+..+.+.+|+..|+|+.+++++++|.++..+...+
T Consensus       138 ~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~~kg  181 (203)
T KOG0131|consen  138 PKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKKDTKG  181 (203)
T ss_pred             CCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEecCCCc
Confidence            78899999999999999999999999999999999998776554

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

Probab=99.95  E-value=1.5e-26  Score=200.76  Aligned_cols=180  Identities=17%  Similarity=0.235  Sum_probs=134.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|.++|+.||.|..+.|        .+|||||+|.+.++|..||+.|||..|.|+.|.|.++..
T Consensus       295 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~  374 (509)
T TIGR01642       295 KDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACV  374 (509)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECcc
Confidence            368999999999999999999999999999887        379999999999999999999999999999999999875


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCC----------CHHHHHHHhhcCCceEEEe
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRV----------SWQDLKDFMRQVGEVCYAD  144 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~----------~~~~l~~~f~~~g~i~~~~  144 (262)
                      .............    .+..................+..+|+|.|+....          ..++|+++|.+||.|..|.
T Consensus       375 ~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~  450 (509)
T TIGR01642       375 GANQATIDTSNGM----APVTLLAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIV  450 (509)
T ss_pred             CCCCCCccccccc----cccccccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEE
Confidence            4322211100000    0000000000000111122345689999986321          2367999999999999998


Q ss_pred             cccC--------CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        145 AHKR--------HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       145 ~~~~--------~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      |...        ..|++||+|++.++|++|+..|||.+|+|+.|.+.+..
T Consensus       451 i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v~~~~~~  500 (509)
T TIGR01642       451 IPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVVAAFYG  500 (509)
T ss_pred             eeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEeC
Confidence            8632        35899999999999999999999999999999987754

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

>KOG0105|consensus

Probab=99.95  E-value=1.6e-25  Score=158.29  Aligned_cols=167  Identities=42%  Similarity=0.713  Sum_probs=132.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~   77 (262)
                      .++|||+|||.++-+.+|+++|-+||.|.+|.|+     ..||||+|+++.+|+.||..-+|..++|..|.|+++.....
T Consensus         6 ~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr~   85 (241)
T KOG0105|consen    6 SRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGRS   85 (241)
T ss_pred             cceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCCc
Confidence            5799999999999999999999999999999995     57999999999999999999999999999999999986642


Q ss_pred             ccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEe
Q psy10320         78 SQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEF  157 (262)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f  157 (262)
                      ......    ..+....+  ..........|.......|.|.+||...++++|++.+.+.|.|+..++...  +.+.|+|
T Consensus        86 s~~~~G----~y~gggrg--Ggg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD--g~GvV~~  157 (241)
T KOG0105|consen   86 SSDRRG----SYSGGGRG--GGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD--GVGVVEY  157 (241)
T ss_pred             cccccc----ccCCCCCC--CCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc--cceeeee
Confidence            222111    00000000  001111122333444678999999999999999999999999999998855  6899999


Q ss_pred             cCHHHHHHHHHHhCCcccCC
Q psy10320        158 ESSSDMKKALDKLDNAELNG  177 (262)
Q Consensus       158 ~~~~~a~~a~~~l~g~~~~g  177 (262)
                      ...++.+-|+..|+...+..
T Consensus       158 ~r~eDMkYAvr~ld~~~~~s  177 (241)
T KOG0105|consen  158 LRKEDMKYAVRKLDDQKFRS  177 (241)
T ss_pred             eehhhHHHHHHhhccccccC
Confidence            99999999999998776643

>KOG0106|consensus

Probab=99.95  E-value=1e-26  Score=172.27  Aligned_cols=165  Identities=58%  Similarity=0.930  Sum_probs=140.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERG   82 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~~   82 (262)
                      |..|||++||+.+.+.+|..||.+||.|.+|.|+.||+||+|.++.+|..|+..||+..|.|..+.|+++.......   
T Consensus         1 m~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~~~---   77 (216)
T KOG0106|consen    1 MPRVYIGRLPYRARERDVERFFKGYGKIPDADMKNGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRRGR---   77 (216)
T ss_pred             CCceeecccCCccchhHHHHHHhhccccccceeecccceeccCchhhhhcccchhcCceecceeeeeeccccccccc---
Confidence            57899999999999999999999999999999999999999999999999999999999999989999887543322   


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHH
Q psy10320         83 RRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSD  162 (262)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~  162 (262)
                              +.++.+ ..........+|..+.+.+.|.+++..+.+.+|.+.|..+|.+....+   ..+++||+|++.++
T Consensus        78 --------g~~~~g-~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~---~~~~~~v~Fs~~~d  145 (216)
T KOG0106|consen   78 --------GRPRGG-DRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA---RRNFAFVEFSEQED  145 (216)
T ss_pred             --------CCCCCC-CccchhhccCCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhh---hccccceeehhhhh
Confidence                    011111 111123445666777889999999999999999999999999855544   67899999999999


Q ss_pred             HHHHHHHhCCcccCCceEEE
Q psy10320        163 MKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       163 a~~a~~~l~g~~~~g~~~~v  182 (262)
                      +..|+..|++..+.++.|++
T Consensus       146 a~ra~~~l~~~~~~~~~l~~  165 (216)
T KOG0106|consen  146 AKRALEKLDGKKLNGRRISV  165 (216)
T ss_pred             hhhcchhccchhhcCceeee
Confidence            99999999999999999999

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

Probab=99.94  E-value=2.3e-25  Score=190.90  Aligned_cols=184  Identities=23%  Similarity=0.361  Sum_probs=136.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|..|++.|||..|.|+.|.|.++..
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~  265 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQD  265 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccC
Confidence            3789999999999999999999999999999884        68999999999999999999999999999999999764


Q ss_pred             CCcccccCC----------CC--------------------CCCCCCCCCCC-------C-----CCCCC----------
Q psy10320         75 IDRSQERGR----------RG--------------------YGSYRAPPPRR-------G-----WGHDR----------  102 (262)
Q Consensus        75 ~~~~~~~~~----------~~--------------------~~~~~~~~~~~-------~-----~~~~~----------  102 (262)
                      .........          ..                    .+....++...       .     .....          
T Consensus       266 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  345 (457)
T TIGR01622       266 STYLLDAANTFEDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALA  345 (457)
T ss_pred             CCccccchhhhccccccccCCcCCCccchHHHHHhhccCCCCccccCCCccchhhhhccccccccccccccccccccccc
Confidence            321111000          00                    00000000000       0     00000          


Q ss_pred             ---CCCCCC---CCCCCceEEEcCCCCCCC----------HHHHHHHhhcCCceEEEecc-cCCCceEEEEecCHHHHHH
Q psy10320        103 ---DDRYGP---PTRSDHRLIVENLSSRVS----------WQDLKDFMRQVGEVCYADAH-KRHRNEGVVEFESSSDMKK  165 (262)
Q Consensus       103 ---~~~~~~---~~~~~~~l~v~nl~~~~~----------~~~l~~~f~~~g~i~~~~~~-~~~~~~~~v~f~~~~~a~~  165 (262)
                         .....+   ...+..+|+|.||.....          .++|.++|.+||.|..+.+. ....|++||+|.+.++|..
T Consensus       346 ~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv~~e~~k~G~v~~v~v~~~~~~G~~fV~F~~~e~A~~  425 (457)
T TIGR01622       346 IMARNSFVPSTNNNLATTCLVLSNMFDPATEEEPNFDNEILDDVKEECSKYGGVVHIYVDTKNSAGKIYLKFSSVDAALA  425 (457)
T ss_pred             cccCCCCCCcccCCCCCcEEEEecCCCCcccccchHHHHHHHHHHHHHHhcCCeeEEEEeCCCCceeEEEEECCHHHHHH
Confidence               000001   123456888999954443          36799999999999999887 6678999999999999999


Q ss_pred             HHHHhCCcccCCceEEEeecC
Q psy10320        166 ALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       166 a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      |+..|||.+|+|+.|.+.+..
T Consensus       426 A~~~lnGr~f~gr~i~~~~~~  446 (457)
T TIGR01622       426 AFQALNGRYFGGKMITAAFVV  446 (457)
T ss_pred             HHHHhcCcccCCeEEEEEEEc
Confidence            999999999999999997654

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.

>KOG0144|consensus

Probab=99.94  E-value=9.6e-27  Score=184.33  Aligned_cols=157  Identities=21%  Similarity=0.387  Sum_probs=135.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCc-ccCC--ceEEEEEc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGK-SLLG--ERVTVEIA   72 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~-~~~g--~~l~v~~~   72 (262)
                      -+|||+-||..++|.||+++|++||.|.+|.|.        +|||||.|.+.++|.+|+.+|++. .|-|  ..|.|.++
T Consensus        35 vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~A  114 (510)
T KOG0144|consen   35 VKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYA  114 (510)
T ss_pred             hhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeeccc
Confidence            489999999999999999999999999999983        799999999999999999999996 5555  57888887


Q ss_pred             cCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cC
Q psy10320         73 KGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KR  148 (262)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~  148 (262)
                      .......                               ..+..|||+-|+..+++.+++++|.+||.|+++.|+    +.
T Consensus       115 d~E~er~-------------------------------~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~  163 (510)
T KOG0144|consen  115 DGERERI-------------------------------VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGL  163 (510)
T ss_pred             chhhhcc-------------------------------ccchhhhhhhccccccHHHHHHHHHhhCccchhhheeccccc
Confidence            6532221                               114489999999999999999999999999999988    56


Q ss_pred             CCceEEEEecCHHHHHHHHHHhCCc-ccCCc--eEEEeecCCCCCC
Q psy10320        149 HRNEGVVEFESSSDMKKALDKLDNA-ELNGR--RIRLIEDKPRGGG  191 (262)
Q Consensus       149 ~~~~~~v~f~~~~~a~~a~~~l~g~-~~~g~--~~~v~~~~~~~~~  191 (262)
                      ++|+|||.|.+.+.|..||+.|||. .+.|+  +|.|+++.+....
T Consensus       164 sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk  209 (510)
T KOG0144|consen  164 SRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKDK  209 (510)
T ss_pred             ccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCCc
Confidence            7999999999999999999999997 45554  6899999876544

>KOG0145|consensus

Probab=99.94  E-value=6.4e-26  Score=168.71  Aligned_cols=152  Identities=22%  Similarity=0.383  Sum_probs=135.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      |+|+|--||.++|+|||+.+|...|+|+.|++.        -||+||.|.++++|++|+..|||..+..+.|+|.++.+.
T Consensus        42 TNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPS  121 (360)
T KOG0145|consen   42 TNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPS  121 (360)
T ss_pred             ceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCC
Confidence            789999999999999999999999999999983        699999999999999999999999999999999999864


Q ss_pred             CcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCC
Q psy10320         76 DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHR  150 (262)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~  150 (262)
                      ...-                                ....|||.+||..++..+|+++|.+||.|.-..++     +..+
T Consensus       122 s~~I--------------------------------k~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~sr  169 (360)
T KOG0145|consen  122 SDSI--------------------------------KDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSR  169 (360)
T ss_pred             hhhh--------------------------------cccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceec
Confidence            3221                                24589999999999999999999999988765554     6679


Q ss_pred             ceEEEEecCHHHHHHHHHHhCCcccCCc--eEEEeecCC
Q psy10320        151 NEGVVEFESSSDMKKALDKLDNAELNGR--RIRLIEDKP  187 (262)
Q Consensus       151 ~~~~v~f~~~~~a~~a~~~l~g~~~~g~--~~~v~~~~~  187 (262)
                      |.+||.|+...+|+.||..|||..-.|+  +|.|+++..
T Consensus       170 GVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFann  208 (360)
T KOG0145|consen  170 GVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANN  208 (360)
T ss_pred             ceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCC
Confidence            9999999999999999999999987775  688888754

>KOG0127|consensus

Probab=99.94  E-value=2.3e-25  Score=181.32  Aligned_cols=183  Identities=25%  Similarity=0.380  Sum_probs=145.6

Q ss_pred             CccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          1 MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         1 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      |.+.||||++||+.++.++|.++|+.+|+|..+.+        .+||+||.|+-.|+++.|+..+.+..|.|+.|.|.++
T Consensus         3 ~~g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A   82 (678)
T KOG0127|consen    3 KSGATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPA   82 (678)
T ss_pred             CCCceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccc
Confidence            45689999999999999999999999999999988        3899999999999999999999999999999999999


Q ss_pred             cCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cC
Q psy10320         73 KGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KR  148 (262)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~  148 (262)
                      ..................-+-.     ... ........+...|.|.|||+.+...+|..+|+.||.|..+.|.    +.
T Consensus        83 ~~R~r~e~~~~~e~~~veK~~~-----q~~-~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgk  156 (678)
T KOG0127|consen   83 KKRARSEEVEKGENKAVEKPIE-----QKR-PTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGK  156 (678)
T ss_pred             cccccchhcccccchhhhcccc-----cCC-cchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCC
Confidence            8765443211000000000000     000 0000011225689999999999999999999999999999988    44


Q ss_pred             CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        149 HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       149 ~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      -+|||||.|.+..+|..|++.+||.+|+|++|-|.++-++.
T Consensus       157 lcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd  197 (678)
T KOG0127|consen  157 LCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKD  197 (678)
T ss_pred             ccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccc
Confidence            57999999999999999999999999999999998776654

>KOG0145|consensus

Probab=99.93  E-value=3.1e-24  Score=159.76  Aligned_cols=184  Identities=22%  Similarity=0.342  Sum_probs=141.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCC--ceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLG--ERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~   72 (262)
                      ..+|||.+||..+|..||+++|..||.|..-.|        ++|.+||.|...++|+.||..|||..-.|  .+|.|+++
T Consensus       127 ~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFa  206 (360)
T KOG0145|consen  127 DANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFA  206 (360)
T ss_pred             ccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEec
Confidence            578999999999999999999999998755443        59999999999999999999999987666  58999999


Q ss_pred             cCCCcccccCC------CCCCCCCCC---CCCCC---------------CCCCCC-------CCCCCCCCCCceEEEcCC
Q psy10320         73 KGIDRSQERGR------RGYGSYRAP---PPRRG---------------WGHDRD-------DRYGPPTRSDHRLIVENL  121 (262)
Q Consensus        73 ~~~~~~~~~~~------~~~~~~~~~---~~~~~---------------~~~~~~-------~~~~~~~~~~~~l~v~nl  121 (262)
                      ..+........      .+.....+|   +.+.+               .+....       ....+.....++|||.||
T Consensus       207 nnPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvYNL  286 (360)
T KOG0145|consen  207 NNPSQKTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWCIFVYNL  286 (360)
T ss_pred             CCcccccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeEEEEEec
Confidence            87644333211      111111111   00000               000000       111222344689999999


Q ss_pred             CCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        122 SSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       122 ~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      .+++.+.-|+++|..||.|..++++     .+++||+||.+.+.++|..||..|||..++++.|.|.+..
T Consensus       287 spd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKt  356 (360)
T KOG0145|consen  287 SPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKT  356 (360)
T ss_pred             CCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEec
Confidence            9999999999999999999999887     5689999999999999999999999999999999998754

>KOG0107|consensus

Probab=99.93  E-value=4.3e-24  Score=149.89  Aligned_cols=75  Identities=47%  Similarity=0.756  Sum_probs=71.2

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe---eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i---~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      ++|+|||+||+..+++.||..+|..||+|..|+|   +.|||||+|+++.+|+.|+..|+|..|.|..|.|+++....
T Consensus         9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~   86 (195)
T KOG0107|consen    9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRP   86 (195)
T ss_pred             CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCc
Confidence            4799999999999999999999999999999999   58999999999999999999999999999999999998653

>KOG0127|consensus

Probab=99.92  E-value=6.2e-24  Score=173.06  Aligned_cols=185  Identities=21%  Similarity=0.392  Sum_probs=138.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      -+|+|.|||+.+.+.+|+.+|+.||.|.+|.|+       .|||||+|...-+|..||+.+|+..|+|++|.|.|+.++.
T Consensus       118 ~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd  197 (678)
T KOG0127|consen  118 WRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKD  197 (678)
T ss_pred             ceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccc
Confidence            479999999999999999999999999999995       5999999999999999999999999999999999998654


Q ss_pred             cccccC-----------------C-CCCCCC-------CCC---C---CCCC-------C--------------CCCCC-
Q psy10320         77 RSQERG-----------------R-RGYGSY-------RAP---P---PRRG-------W--------------GHDRD-  103 (262)
Q Consensus        77 ~~~~~~-----------------~-~~~~~~-------~~~---~---~~~~-------~--------------~~~~~-  103 (262)
                      .-....                 . ....+.       ...   .   .+.+       .              ..... 
T Consensus       198 ~ye~ta~~~~~s~Kk~~~eEed~e~~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~~~  277 (678)
T KOG0127|consen  198 TYEDTAHEEKQSLKKAVKEEEDKEADEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKESD  277 (678)
T ss_pred             cccccchhhhhhhhhccchhhhcccccccccccchhcccccccccccccccchhhhccccccccccccccccccccCccc
Confidence            222110                 0 000000       000   0   0000       0              00000 


Q ss_pred             ---CC--CCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHh---
Q psy10320        104 ---DR--YGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKL---  170 (262)
Q Consensus       104 ---~~--~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l---  170 (262)
                         +.  ...-.....+|||.|||+++++++|.+.|++||+|.++.+.     +.+.|.|||.|.++.+|+.||...   
T Consensus       278 k~~q~k~~~en~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa  357 (678)
T KOG0127|consen  278 KKAQNKTTRENITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPA  357 (678)
T ss_pred             chhccccccccccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCcc
Confidence               00  01111224699999999999999999999999999988776     567899999999999999999876   


Q ss_pred             --CC-cccCCceEEEeecCCC
Q psy10320        171 --DN-AELNGRRIRLIEDKPR  188 (262)
Q Consensus       171 --~g-~~~~g~~~~v~~~~~~  188 (262)
                        .| ..|.|+.|.|..+-++
T Consensus       358 ~e~g~~ll~GR~Lkv~~Av~R  378 (678)
T KOG0127|consen  358 SEDGSVLLDGRLLKVTLAVTR  378 (678)
T ss_pred             CCCceEEEeccEEeeeeccch
Confidence              23 5788999999776654

>KOG0124|consensus

Probab=99.92  E-value=1.2e-25  Score=174.91  Aligned_cols=164  Identities=22%  Similarity=0.420  Sum_probs=137.8

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .||+||||.|.+.+.|+.|+..|..||+|+.|.++        +|||||+|+-+|.|+.|++.|||..++|+.|+|....
T Consensus       112 iMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPs  191 (544)
T KOG0124|consen  112 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS  191 (544)
T ss_pred             HhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCC
Confidence            48999999999999999999999999999999993        8999999999999999999999999999999997433


Q ss_pred             CCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cC
Q psy10320         74 GIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KR  148 (262)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~  148 (262)
                      .......                     .-+..+.....-+.|||..+.++++++||+..|+.||+|..|.+.     +.
T Consensus       192 NmpQAQp---------------------iID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~  250 (544)
T KOG0124|consen  192 NMPQAQP---------------------IIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRG  250 (544)
T ss_pred             CCcccch---------------------HHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCC
Confidence            2110000                     000000011123589999999999999999999999999999887     45


Q ss_pred             CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        149 HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       149 ~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ++||+|++|.+......|+..||-..++|..|+|..+-
T Consensus       251 HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~v  288 (544)
T KOG0124|consen  251 HKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV  288 (544)
T ss_pred             ccceeeEEeccccchHHHhhhcchhhcccceEeccccc
Confidence            78999999999999999999999999999999986553

>KOG0107|consensus

Probab=99.91  E-value=4e-23  Score=145.05  Aligned_cols=76  Identities=26%  Similarity=0.371  Sum_probs=72.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .+.|||+||+..+++.+|+.+|..||+|..|+|...+.|||||+|+++.+|.+|+..|+|..|+|..|+|+....+
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~   85 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGR   85 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCC
Confidence            5699999999999999999999999999999999999999999999999999999999999999999999877644

>KOG0110|consensus

Probab=99.91  E-value=1.5e-23  Score=175.86  Aligned_cols=162  Identities=25%  Similarity=0.442  Sum_probs=139.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEI   71 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~   71 (262)
                      .|+|||.||++.+|.++|...|...|.|..|.|.           .|||||+|.++++|+.|++.|+|..++|+.|.|.+
T Consensus       515 ~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~  594 (725)
T KOG0110|consen  515 ETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKI  594 (725)
T ss_pred             chhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEe
Confidence            3569999999999999999999999999999873           49999999999999999999999999999999999


Q ss_pred             ccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc----
Q psy10320         72 AKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----  147 (262)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----  147 (262)
                      +.........                       ...++......|.|.|+|+.++..+++++|..||.|..+.+..    
T Consensus       595 S~~k~~~~~g-----------------------K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k  651 (725)
T KOG0110|consen  595 SENKPASTVG-----------------------KKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGK  651 (725)
T ss_pred             ccCccccccc-----------------------cccccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcc
Confidence            9822221111                       0111222256899999999999999999999999999998873    


Q ss_pred             -CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        148 -RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       148 -~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                       ..+|+|||+|-++.+|..|+.+|.+..+.|+.|.++++..
T Consensus       652 ~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~  692 (725)
T KOG0110|consen  652 GAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKS  692 (725)
T ss_pred             hhhccceeeeccCcHHHHHHHHhhcccceechhhheehhcc
Confidence             3589999999999999999999999999999999987764

>KOG4206|consensus

Probab=99.89  E-value=1.7e-21  Score=143.18  Aligned_cols=182  Identities=18%  Similarity=0.250  Sum_probs=140.7

Q ss_pred             eEEEcCCCCCCCHHHHHH----HHhcCCceeEEEe-----eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          5 KVYIGGLPYGVRERDLEK----FVKGYGRIRDVIL-----KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~----~F~~~G~v~~v~i-----~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ||||.||+..+..++|+.    +|+.||.|.+|..     .+|.|||.|.+++.|-.|+..|+|..|.|+.+.|+|+..+
T Consensus        11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~   90 (221)
T KOG4206|consen   11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSD   90 (221)
T ss_pred             eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCc
Confidence            999999999999999998    9999999999988     3899999999999999999999999999999999999866


Q ss_pred             CcccccCC------CCC------CCCCCCC--CCCCCC---CCCC-CCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcC
Q psy10320         76 DRSQERGR------RGY------GSYRAPP--PRRGWG---HDRD-DRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQV  137 (262)
Q Consensus        76 ~~~~~~~~------~~~------~~~~~~~--~~~~~~---~~~~-~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~  137 (262)
                      ........      ...      .....++  .+....   .+.+ ....++..+...+|+.|+|.+++.+.+..+|.+|
T Consensus        91 sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~lf~qf  170 (221)
T KOG4206|consen   91 SDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSDLFEQF  170 (221)
T ss_pred             cchhhccCceeccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchhHHHHHHHHhhC
Confidence            43332211      000      0000000  000000   0000 0113334557799999999999999999999999


Q ss_pred             CceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccC-CceEEEeecC
Q psy10320        138 GEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELN-GRRIRLIEDK  186 (262)
Q Consensus       138 g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~-g~~~~v~~~~  186 (262)
                      .....+.+.....+.|||+|.+...+..|...++|..+- ...+.|.++.
T Consensus       171 ~g~keir~i~~~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~  220 (221)
T KOG4206|consen  171 PGFKEIRLIPPRSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK  220 (221)
T ss_pred             cccceeEeccCCCceeEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence            999999888878899999999999999999999998876 6667666553

>KOG0146|consensus

Probab=99.89  E-value=1.1e-22  Score=152.06  Aligned_cols=188  Identities=18%  Similarity=0.357  Sum_probs=142.1

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCc-ccCC--ceEEEEEcc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGK-SLLG--ERVTVEIAK   73 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~-~~~g--~~l~v~~~~   73 (262)
                      .+||||.|...-+|||++.+|..||+|.+|.+       +||||||.|.+.-+|+.||..|+|. ++-|  ..|.|+++.
T Consensus        20 rklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~AD   99 (371)
T KOG0146|consen   20 RKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFAD   99 (371)
T ss_pred             hhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEecc
Confidence            58999999999999999999999999999998       4899999999999999999999996 5555  588999987


Q ss_pred             CCCccccc--------------------------------------------------------------CC--------
Q psy10320         74 GIDRSQER--------------------------------------------------------------GR--------   83 (262)
Q Consensus        74 ~~~~~~~~--------------------------------------------------------------~~--------   83 (262)
                      ..+....+                                                              ..        
T Consensus       100 TdkER~lRRMQQma~qlGm~~Pl~l~~g~~~ay~qalmQqQa~~~at~~~~~L~p~~~~~~~~mQ~~aA~~angl~A~Pv  179 (371)
T KOG0146|consen  100 TDKERTLRRMQQMAGQLGMFNPLALPFGAYGAYAQALMQQQAALLATVAGPYLSPMAAFAAAQMQQMAALNANGLAAAPV  179 (371)
T ss_pred             chHHHHHHHHHHHHHHhcccCccccccchhHHHHHHHHHHHHHHHHhhcccccChhhhhHHHHHHHHHHHhhcccccCCc
Confidence            55432221                                                              00        


Q ss_pred             CCCCCCCCCC-----------------------CCCCC---------------CCCCC---C------------------
Q psy10320         84 RGYGSYRAPP-----------------------PRRGW---------------GHDRD---D------------------  104 (262)
Q Consensus        84 ~~~~~~~~~~-----------------------~~~~~---------------~~~~~---~------------------  104 (262)
                      .+..+...++                       ++...               ....+   +                  
T Consensus       180 ~p~s~~~~pp~~~a~~~~~~~A~~g~ng~~~l~~q~~gqpa~~~vy~ng~~pypaQsp~va~~lq~a~~g~~~Y~Aaypa  259 (371)
T KOG0146|consen  180 TPASGGSTPPGIGATAVPGIPAPIGVNGFTGLPPQPNGQPAAEAVYANGLHPYPAQSPTVADPLQQAYAGVQQYAAAYPA  259 (371)
T ss_pred             CccccCCCCCcccccccCCcccccccccccCCCCCCCCCcchhHHhhcCCccCCCCCccccchhhhhhhhHHHHhhhcch
Confidence            0000000000                       00000               00000   0                  


Q ss_pred             C-----------------CCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHH
Q psy10320        105 R-----------------YGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSD  162 (262)
Q Consensus       105 ~-----------------~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~  162 (262)
                      .                 ..-.....|.|||..||.+..+.+|.++|-.||.|...++.     +.++.++||.|+++..
T Consensus       260 ays~v~~~~pq~p~~~~qqqreGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~S  339 (371)
T KOG0146|consen  260 AYSPISQAFPQPPPLLPQQQREGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPAS  339 (371)
T ss_pred             hhhhhhhcCCCCcchhhhhhhcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchh
Confidence            0                 00012346899999999999999999999999999887765     5678999999999999


Q ss_pred             HHHHHHHhCCcccCCceEEEeecCCCCCC
Q psy10320        163 MKKALDKLDNAELNGRRIRLIEDKPRGGG  191 (262)
Q Consensus       163 a~~a~~~l~g~~~~g~~~~v~~~~~~~~~  191 (262)
                      ++.||.+|||..|+-++|+|...+|+...
T Consensus       340 aQaAIqAMNGFQIGMKRLKVQLKRPkdan  368 (371)
T KOG0146|consen  340 AQAAIQAMNGFQIGMKRLKVQLKRPKDAN  368 (371)
T ss_pred             HHHHHHHhcchhhhhhhhhhhhcCccccC
Confidence            99999999999999999999988877543

>KOG0123|consensus

Probab=99.89  E-value=7e-22  Score=161.49  Aligned_cols=144  Identities=23%  Similarity=0.353  Sum_probs=131.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-----eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-----KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-----~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~   78 (262)
                      ..||||   +.+|+..|.++|+.+|+|..|++     +-|||||.|.++++|++||..||...+.|+.|.|.|+...   
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd---   75 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDATSLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRD---   75 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccCCceeEEEeecCCccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccC---
Confidence            579999   99999999999999999999988     3689999999999999999999999999999999998743   


Q ss_pred             cccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc---cCCCceEEE
Q psy10320         79 QERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH---KRHRNEGVV  155 (262)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~~~~~~v  155 (262)
                                                        ...+||.||+.+++..+|.++|+.||.|..|.+.   ...+|+ ||
T Consensus        76 ----------------------------------~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV  120 (369)
T KOG0123|consen   76 ----------------------------------PSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FV  120 (369)
T ss_pred             ----------------------------------CceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EE
Confidence                                              1139999999999999999999999999999887   336788 99


Q ss_pred             EecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        156 EFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       156 ~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +|++++.|.+|++.+||..+.|+.|.|.....+
T Consensus       121 ~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~  153 (369)
T KOG0123|consen  121 QFESEESAKKAIEKLNGMLLNGKKIYVGLFERK  153 (369)
T ss_pred             EeCCHHHHHHHHHHhcCcccCCCeeEEeeccch
Confidence            999999999999999999999999998665543

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

Probab=99.86  E-value=1.2e-19  Score=155.37  Aligned_cols=72  Identities=21%  Similarity=0.464  Sum_probs=68.2

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ++|||+|||+.+++++|+++|+.||.|..|.|.        +|||||+|.+.++|..||..||+..|+|+.|.|.++...
T Consensus       205 ~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~p  284 (612)
T TIGR01645       205 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP  284 (612)
T ss_pred             ceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCC
Confidence            689999999999999999999999999999883        789999999999999999999999999999999988754

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.

>KOG0123|consensus

Probab=99.86  E-value=6.8e-21  Score=155.71  Aligned_cols=159  Identities=22%  Similarity=0.368  Sum_probs=138.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~   77 (262)
                      +.|||.||++.++..+|.++|+.||+|..|++      ++|| ||+|+++++|++|++.|||..+.|+.|.|........
T Consensus        77 ~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~e  155 (369)
T KOG0123|consen   77 SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEE  155 (369)
T ss_pred             ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhh
Confidence            45999999999999999999999999999999      3899 9999999999999999999999999999998876544


Q ss_pred             ccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceE
Q psy10320         78 SQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEG  153 (262)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~  153 (262)
                      .......                        ....-..++|.+++.++++..|..+|..+|.|..+.+.    +.+++++
T Consensus       156 r~~~~~~------------------------~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g~~~~~g  211 (369)
T KOG0123|consen  156 REAPLGE------------------------YKKRFTNVYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIGKSKGFG  211 (369)
T ss_pred             hcccccc------------------------hhhhhhhhheeccccccchHHHHHhhcccCcceEEEEeecCCCCCCCcc
Confidence            3321110                        11223478999999999999999999999999998877    4568999


Q ss_pred             EEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        154 VVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       154 ~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ||.|+++++|..|++.|++..+.+..+.|..+..
T Consensus       212 fv~f~~~e~a~~av~~l~~~~~~~~~~~V~~aqk  245 (369)
T KOG0123|consen  212 FVNFENPEDAKKAVETLNGKIFGDKELYVGRAQK  245 (369)
T ss_pred             ceeecChhHHHHHHHhccCCcCCccceeeccccc
Confidence            9999999999999999999999999999887766

>KOG0144|consensus

Probab=99.85  E-value=1.3e-20  Score=149.89  Aligned_cols=77  Identities=18%  Similarity=0.326  Sum_probs=68.4

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ...+||.+||.+.-+.+|-..|..||.|...++.     +-++.|+||.|++..+|..||..|||..++.++++|.....
T Consensus       424 GanlfiyhlPqefgdq~l~~~f~pfG~Vlsakvfidk~tnlskcfgfvSyen~~sa~~aI~amngfQig~KrlkVQlk~~  503 (510)
T KOG0144|consen  424 GANLFIYHLPQEFGDQDLIATFQPFGGVLSAKVFIDKVTNLSKCFGFVSYENAQSAQNAISAMNGFQIGSKRLKVQLKRD  503 (510)
T ss_pred             ccceeeeeCchhhhhHHHHHHhccccceeEEEEEEecccCHhhhcCcccccchhhhHHHHHHhcchhhccccceEEeeec
Confidence            4579999999999999999999999999877655     44578999999999999999999999999999999987665


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      +.
T Consensus       504 ~~  505 (510)
T KOG0144|consen  504 RN  505 (510)
T ss_pred             cC
Confidence            54

>KOG0147|consensus

Probab=99.85  E-value=5.7e-21  Score=156.33  Aligned_cols=181  Identities=23%  Similarity=0.323  Sum_probs=130.6

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .|||+||..++|+++|+.+|+.||.|..|.+.        +||+||+|.+.++|..|++.|||..+.|+.|+|.......
T Consensus       280 rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~  359 (549)
T KOG0147|consen  280 RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERV  359 (549)
T ss_pred             hhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeec
Confidence            48999999999999999999999999998883        8999999999999999999999999999999998776543


Q ss_pred             cccccCC----------CCCCCCCCCCCC------------------------------CCCCCCCCCCCCCCC------
Q psy10320         77 RSQERGR----------RGYGSYRAPPPR------------------------------RGWGHDRDDRYGPPT------  110 (262)
Q Consensus        77 ~~~~~~~----------~~~~~~~~~~~~------------------------------~~~~~~~~~~~~~~~------  110 (262)
                      .......          ........+..+                              ...+.........|.      
T Consensus       360 ~~~~a~~~~~d~D~~d~~gl~~~~~g~~Ql~~kla~~~~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~  439 (549)
T KOG0147|consen  360 DTKEAAVTQFDFDEDDRQGLSLGSGGRNQLMAKLAEGKGRSLPSTAISALLLLAKLASAAQFNGVVRVRSVDPADASPAF  439 (549)
T ss_pred             ccccccccccccchhhccccccccccHHHHHHHHhccCCccccchhhhHHHhccccchHHhhcCCcCccccCcccccccc
Confidence            3222100          000000000000                              000000000011111      


Q ss_pred             -CCCceEEEcCCCCCCC----------HHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCce
Q psy10320        111 -RSDHRLIVENLSSRVS----------WQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRR  179 (262)
Q Consensus       111 -~~~~~l~v~nl~~~~~----------~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~  179 (262)
                       .+..++.+.|+=...+          .+++.+.+.++|+|++|.+..+..|+.||.|.+.+.|..|+.+|||.||.|+.
T Consensus       440 ~i~t~C~lL~nMFdpstete~n~d~eI~edV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~A~~a~~alhgrWF~gr~  519 (549)
T KOG0147|consen  440 DIPTQCLLLSNMFDPSTETEPNWDQEIREDVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEAAGTAVKALHGRWFAGRM  519 (549)
T ss_pred             CCccHHHHHhhcCCcccccCcchhhHHHHHHHHHHHhcCCeeEEEEccCCCceEEEecCcHHHHHHHHHHHhhhhhccce
Confidence             2334555666522211          26788889999999999999888899999999999999999999999999999


Q ss_pred             EEEeec
Q psy10320        180 IRLIED  185 (262)
Q Consensus       180 ~~v~~~  185 (262)
                      |+..+-
T Consensus       520 Ita~~~  525 (549)
T KOG0147|consen  520 ITAKYL  525 (549)
T ss_pred             eEEEEe
Confidence            987653

>KOG4207|consensus

Probab=99.84  E-value=3.9e-20  Score=133.42  Aligned_cols=71  Identities=37%  Similarity=0.671  Sum_probs=68.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      |++|.|.||.+-+|.++|..+|++||.|.+|.|+        +|||||-|.+..+|+.|++.|+|..++|+.|.|+++.
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar   91 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR   91 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence            6899999999999999999999999999999994        7999999999999999999999999999999999886

>KOG4205|consensus

Probab=99.84  E-value=2.1e-20  Score=147.64  Aligned_cols=162  Identities=25%  Similarity=0.454  Sum_probs=137.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||++|++.+|++.|++.|..||+|.+|.++        +||+||+|++++.+..+| ......|+|+.|.+..+.+
T Consensus         6 ~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl-~~~~h~~dgr~ve~k~av~   84 (311)
T KOG4205|consen    6 SGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVL-NARTHKLDGRSVEPKRAVS   84 (311)
T ss_pred             CcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheee-cccccccCCccccceeccC
Confidence            5799999999999999999999999999999995        499999999999999988 6666789999999988876


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~  149 (262)
                      .........                          ......|||++||..+++++++++|++||.|..+.+.     ...
T Consensus        85 r~~~~~~~~--------------------------~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~  138 (311)
T KOG4205|consen   85 REDQTKVGR--------------------------HLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRP  138 (311)
T ss_pred             ccccccccc--------------------------ccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeeccccccc
Confidence            543332111                          1135689999999999999999999999988877665     457


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCCCC
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGR  192 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~~~  192 (262)
                      ++++||.|.+.+.+.+++. .....|+++.+.|..+.|+.-..
T Consensus       139 rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~pk~~~~  180 (311)
T KOG4205|consen  139 RGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAIPKEVMQ  180 (311)
T ss_pred             ccceeeEeccccccceecc-cceeeecCceeeEeeccchhhcc
Confidence            8999999999999999885 67889999999999998876443

>KOG0147|consensus

Probab=99.84  E-value=4.8e-21  Score=156.78  Aligned_cols=162  Identities=28%  Similarity=0.409  Sum_probs=132.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .|||+--|+..+++-+|.+||+.+|.|.+|.|        ++|.|||+|.+.+.+..|| .|.|..+.|.+|.|+.....
T Consensus       180 Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~sEae  258 (549)
T KOG0147|consen  180 RTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQLSEAE  258 (549)
T ss_pred             HHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCceeEecccHHH
Confidence            36677777888999999999999999999998        3899999999999999999 99999999999999887654


Q ss_pred             CcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCC
Q psy10320         76 DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHR  150 (262)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~  150 (262)
                      ............+..                  -..+...|||+||..++++++|..+|+.||.|..|.+.     +..+
T Consensus       259 knr~a~~s~a~~~k~------------------~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~sk  320 (549)
T KOG0147|consen  259 KNRAANASPALQGKG------------------FTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSK  320 (549)
T ss_pred             HHHHHhccccccccc------------------cccchhhhhhcccccCchHHHHhhhccCcccceeeeecccccccccc
Confidence            333211111111000                  01112238999999999999999999999999998876     6679


Q ss_pred             ceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        151 NEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       151 ~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ||+||+|.+.++|..|++.|||.++.|+.|+|..
T Consensus       321 gfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~  354 (549)
T KOG0147|consen  321 GFGFITFVNKEDARKALEQLNGFELAGRLIKVSV  354 (549)
T ss_pred             CcceEEEecHHHHHHHHHHhccceecCceEEEEE
Confidence            9999999999999999999999999999998843

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

Probab=99.82  E-value=2.9e-19  Score=127.81  Aligned_cols=76  Identities=34%  Similarity=0.627  Sum_probs=71.0

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      ++++|||+|||+.+|+++|+++|++||.|..|.|.        +|||||+|.+.++|+.||+.||+..|+|+.|.|.++.
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~  112 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAN  112 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCC
Confidence            57899999999999999999999999999999883        7999999999999999999999999999999999997


Q ss_pred             CCCc
Q psy10320         74 GIDR   77 (262)
Q Consensus        74 ~~~~   77 (262)
                      ....
T Consensus       113 ~~~~  116 (144)
T PLN03134        113 DRPS  116 (144)
T ss_pred             cCCC
Confidence            6544

>KOG0148|consensus

Probab=99.81  E-value=1.4e-19  Score=135.71  Aligned_cols=133  Identities=20%  Similarity=0.311  Sum_probs=109.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERG   82 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~~   82 (262)
                      ..||||+||...+||+-|..||...|.|+.++|...                           .|.|.++.......   
T Consensus         6 prtlyvgnld~~vte~~i~~lf~qig~v~~~k~i~~---------------------------e~~v~wa~~p~nQs---   55 (321)
T KOG0148|consen    6 PRTLYVGNLDSTVTEDFIATLFNQIGSVTKTKVIFD---------------------------ELKVNWATAPGNQS---   55 (321)
T ss_pred             CceEEeeccChhhHHHHHHHHHHhccccccceeehh---------------------------hhccccccCcccCC---
Confidence            579999999999999999999999999999887532                           34555554321100   


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEe
Q psy10320         83 RRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEF  157 (262)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f  157 (262)
                                              -+.......+||+.|..+++-++|++.|..||+|..+.++     .+.+||+||.|
T Consensus        56 ------------------------k~t~~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf  111 (321)
T KOG0148|consen   56 ------------------------KPTSNQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSF  111 (321)
T ss_pred             ------------------------CCccccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEec
Confidence                                    0011114479999999999999999999999999999887     56799999999


Q ss_pred             cCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        158 ESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       158 ~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      -+.++|+.||..|+|++|+++.|+.+.+..+.
T Consensus       112 ~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp  143 (321)
T KOG0148|consen  112 PNKEDAENAIQQMNGQWLGRRTIRTNWATRKP  143 (321)
T ss_pred             cchHHHHHHHHHhCCeeeccceeeccccccCc
Confidence            99999999999999999999999999987665

>KOG4676|consensus

Probab=99.81  E-value=9.4e-21  Score=148.75  Aligned_cols=173  Identities=16%  Similarity=0.179  Sum_probs=117.1

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEE-EE
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTV-EI   71 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v-~~   71 (262)
                      ..|.|.||.+++|.++|+.+|..+|+|.++.|.           ...|||.|.+...+..|. .|.+..|-++.|.| -+
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdraliv~p~   86 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVRPY   86 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeeeeEEEEec
Confidence            479999999999999999999999999998872           579999999999999998 55555555555554 44


Q ss_pred             ccCCCcccccCCCCCC----CCCCCCCCC--------CCCCCCCCCCC-CCCC----------CCceEEEcCCCCCCCHH
Q psy10320         72 AKGIDRSQERGRRGYG----SYRAPPPRR--------GWGHDRDDRYG-PPTR----------SDHRLIVENLSSRVSWQ  128 (262)
Q Consensus        72 ~~~~~~~~~~~~~~~~----~~~~~~~~~--------~~~~~~~~~~~-~~~~----------~~~~l~v~nl~~~~~~~  128 (262)
                      ................    ....++.+.        ..++.+..-+. |+..          ...+++|++|+..+...
T Consensus        87 ~~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~~~l~  166 (479)
T KOG4676|consen   87 GDEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISAAILP  166 (479)
T ss_pred             CCCCCccHHHHHhcCcccccccccCCCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhhhcch
Confidence            4444333321111110    000111110        01111111111 1111          12469999999999999


Q ss_pred             HHHHHhhcCCceEEEecc-cCCCceEEEEecCHHHHHHHHHHhCCcccCCc
Q psy10320        129 DLKDFMRQVGEVCYADAH-KRHRNEGVVEFESSSDMKKALDKLDNAELNGR  178 (262)
Q Consensus       129 ~l~~~f~~~g~i~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~  178 (262)
                      ++.+.|+.+|.|.+..+. +....+|.++|........|+. ++|.++.-.
T Consensus       167 e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~halr-~~gre~k~q  216 (479)
T KOG4676|consen  167 ESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHALR-SHGRERKRQ  216 (479)
T ss_pred             hhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHHH-hcchhhhhh
Confidence            999999999999988877 4456688899999988888886 677766533

>KOG4207|consensus

Probab=99.81  E-value=7e-19  Score=127.00  Aligned_cols=74  Identities=31%  Similarity=0.439  Sum_probs=69.3

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ...|.|.||.+.++.++|..+|++||.|.+|.|.     .+.+|||||.|.+..+|++|+++|+|..|+|+.|+|..++
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar   91 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR   91 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence            4589999999999999999999999999999887     5679999999999999999999999999999999997765

>KOG1457|consensus

Probab=99.79  E-value=5.2e-18  Score=123.98  Aligned_cols=172  Identities=20%  Similarity=0.323  Sum_probs=122.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---------CcEEEEEeCChhhHHHHHHHhcCcccC---CceEEEEE
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---------NGFGFVEFEDYRDADDAVYELNGKSLL---GERVTVEI   71 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~a~~a~~~l~~~~~~---g~~l~v~~   71 (262)
                      .||||.+||.++..-||..+|..|--.+.+.|+         +-+|||.|.+..+|..|+..|||+.|+   +..|.|++
T Consensus        35 RTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiEl  114 (284)
T KOG1457|consen   35 RTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIEL  114 (284)
T ss_pred             ceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeee
Confidence            599999999999999999999988555555552         369999999999999999999999885   68999999


Q ss_pred             ccCCCcccccCCCCCCCCCC-----------------------------CCCCCCCCCCCC-----------CCC-----
Q psy10320         72 AKGIDRSQERGRRGYGSYRA-----------------------------PPPRRGWGHDRD-----------DRY-----  106 (262)
Q Consensus        72 ~~~~~~~~~~~~~~~~~~~~-----------------------------~~~~~~~~~~~~-----------~~~-----  106 (262)
                      ++...+.......+.++.+.                             .++.........           ...     
T Consensus       115 AKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~~~a~al~~~~~t~~~~l~a~~~~~P~a~  194 (284)
T KOG1457|consen  115 AKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEPGNADALKENDTTKSEALSAPDSKAPSAN  194 (284)
T ss_pred             hhcCcccccCCCCCCCCCCccccccccChhhcccchhhccccccCccccCCccccccCCCccccchhhhhhhhhcCCccc
Confidence            98654333221111110000                             000000000000           000     


Q ss_pred             ---------CCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-CCCceEEEEecCHHHHHHHHHHhCCccc
Q psy10320        107 ---------GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-RHRNEGVVEFESSSDMKKALDKLDNAEL  175 (262)
Q Consensus       107 ---------~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-~~~~~~~v~f~~~~~a~~a~~~l~g~~~  175 (262)
                               ........+|||.||..++++++|+.+|+.|.....+.+.. ..-.+||++|++.+.|..|+..|+|..+
T Consensus       195 a~l~ks~q~~~~~~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~~  273 (284)
T KOG1457|consen  195 AHLEKSSQGGSGARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNLL  273 (284)
T ss_pred             chhhhhhcccccchhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhccee
Confidence                     01112245899999999999999999999998777666653 2346899999999999999999988765

>KOG1190|consensus

Probab=99.78  E-value=2.7e-17  Score=130.22  Aligned_cols=184  Identities=21%  Similarity=0.257  Sum_probs=141.8

Q ss_pred             cceEEEcCCC-CCCCHHHHHHHHhcCCceeEEEe---eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcc
Q psy10320          3 GTKVYIGGLP-YGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         3 ~~~l~V~nl~-~~~t~~~l~~~F~~~G~v~~v~i---~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~   78 (262)
                      .++|.|.||. ..+|.+.|..+|.-||.|..|+|   ++..|+|+|.+...|+.|++.|+|..|.|+.|.|.+++.....
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~vq  376 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNVQ  376 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCcccc
Confidence            4788999985 57999999999999999999999   4789999999999999999999999999999999999977655


Q ss_pred             cccCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCce-EEEecccCCCceE
Q psy10320         79 QERGRRGYGSY----RAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEV-CYADAHKRHRNEG  153 (262)
Q Consensus        79 ~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i-~~~~~~~~~~~~~  153 (262)
                      ...+.....+.    ...+-.++..+ ....+...-.+..+|++.|+|..+++++++..|...|.. ......++.+.++
T Consensus       377 lp~egq~d~glT~dy~~spLhrfkkp-gsKN~~ni~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff~kd~kma  455 (492)
T KOG1190|consen  377 LPREGQEDQGLTKDYGNSPLHRFKKP-GSKNYQNIFPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQKDRKMA  455 (492)
T ss_pred             CCCCCCccccccccCCCCchhhccCc-ccccccccCCchhheeeccCCcccchhHHHHhhhcCCceEEeeeecCCCccee
Confidence            54432221111    11111111111 111111112236689999999999999999999988855 5556667778899


Q ss_pred             EEEecCHHHHHHHHHHhCCcccCCc-eEEEeecCC
Q psy10320        154 VVEFESSSDMKKALDKLDNAELNGR-RIRLIEDKP  187 (262)
Q Consensus       154 ~v~f~~~~~a~~a~~~l~g~~~~g~-~~~v~~~~~  187 (262)
                      ++.+.+.++|..|+..++...+++. .++|.+.+.
T Consensus       456 l~q~~sveeA~~ali~~hnh~lgen~hlRvSFSks  490 (492)
T KOG1190|consen  456 LPQLESVEEAIQALIDLHNHYLGENHHLRVSFSKS  490 (492)
T ss_pred             ecccCChhHhhhhccccccccCCCCceEEEEeecc
Confidence            9999999999999999999999876 789988753

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

Probab=99.76  E-value=5.7e-18  Score=144.95  Aligned_cols=134  Identities=25%  Similarity=0.338  Sum_probs=100.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcC--CceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCccccc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGY--GRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQER   81 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~--G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~   81 (262)
                      .+|||+||+..+|+++|+++|+.|  |+|..|.+.++||||+|.+.++|++||+.||+..|.|+.|.|.++++.......
T Consensus       234 k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~~~~~  313 (578)
T TIGR01648       234 KILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIRDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVDKKSYV  313 (578)
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeecCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCCccccc
Confidence            589999999999999999999999  999999999999999999999999999999999999999999999876443211


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceE
Q psy10320         82 GRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVC  141 (262)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~  141 (262)
                      ......+....... ...........+   ...+++++|+++.+.+..+.++|...|.+.
T Consensus       314 ~~~rg~gg~~~~~~-~~~~~~g~~~sp---~s~~~~~g~~~~~~~~~~~~~~f~~~g~~~  369 (578)
T TIGR01648       314 RYTRGTGGRGKERQ-AARQSLGQVYDP---ASRSLAYEDYYYHPPYAPSLHFPRMPGPIR  369 (578)
T ss_pred             ccccccCCCccccc-ccccccCcccCc---cccccccccccccccccchhhccccCcccc
Confidence            10000000000000 000001111222   256899999999999999999999988754

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.

>KOG4211|consensus

Probab=99.76  E-value=2.6e-17  Score=133.47  Aligned_cols=155  Identities=22%  Similarity=0.310  Sum_probs=123.4

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~   78 (262)
                      .|.+.+||+++|++||.+||+.+ .|..+.+.      .|-|||+|.++|++++|+ +.+...+..+.|.|-.+...+.+
T Consensus        12 ~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Al-kkdR~~mg~RYIEVf~~~~~e~d   89 (510)
T KOG4211|consen   12 EVRLRGLPWSATEKEILDFFSNC-GIENLEIPRRNGRPSGEAYVEFTSEEDVEKAL-KKDRESMGHRYIEVFTAGGAEAD   89 (510)
T ss_pred             EEEecCCCccccHHHHHHHHhcC-ceeEEEEeccCCCcCcceEEEeechHHHHHHH-HhhHHHhCCceEEEEccCCcccc
Confidence            57889999999999999999999 47777773      689999999999999999 88889999999999988765543


Q ss_pred             cccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEE-Eecc----cCCCceE
Q psy10320         79 QERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCY-ADAH----KRHRNEG  153 (262)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~-~~~~----~~~~~~~  153 (262)
                      ..........                     ......|-+.+||+.++++||.++|+..-.+.. +.++    +.+.+.|
T Consensus        90 ~~~~~~g~~s---------------------~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEA  148 (510)
T KOG4211|consen   90 WVMRPGGPNS---------------------SANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEA  148 (510)
T ss_pred             ccccCCCCCC---------------------CCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccce
Confidence            2211100000                     012448899999999999999999998876655 2222    4578999


Q ss_pred             EEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        154 VVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       154 ~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      ||.|++.+.|+.||. -|...|+.+-|.|-
T Consensus       149 fVqF~sqe~ae~Al~-rhre~iGhRYIEvF  177 (510)
T KOG4211|consen  149 FVQFESQESAEIALG-RHRENIGHRYIEVF  177 (510)
T ss_pred             EEEecCHHHHHHHHH-HHHHhhccceEEee
Confidence            999999999999996 57788888888884

>KOG0110|consensus

Probab=99.76  E-value=1.9e-17  Score=139.56  Aligned_cols=184  Identities=23%  Similarity=0.302  Sum_probs=137.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeC-c-EEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-G-FGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQE   80 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~-g-~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~   80 (262)
                      -+.|+|+|||..+..++|..+|..||.|..|.|+. | .|+|+|.++.+|..|+..|....+...+|.+.|+........
T Consensus       385 ~~vil~kNlpa~t~~~elt~~F~~fG~i~rvllp~~G~~aiv~fl~p~eAr~Afrklaysr~k~~plyle~aP~dvf~~~  464 (725)
T KOG0110|consen  385 DTVILVKNLPAGTLSEELTEAFLRFGEIGRVLLPPGGTGAIVEFLNPLEARKAFRKLAYSRFKSAPLYLEWAPEDVFTED  464 (725)
T ss_pred             cceeeeccCccccccHHHHHHhhcccccceeecCcccceeeeeecCccchHHHHHHhchhhhccCccccccChhhhccCC
Confidence            37899999999999999999999999999998863 3 499999999999999999999999999999988875544321


Q ss_pred             cCC--CCCCCCCC----C-----CCCCCCCCCCCCCCC-------CCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEE
Q psy10320         81 RGR--RGYGSYRA----P-----PPRRGWGHDRDDRYG-------PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCY  142 (262)
Q Consensus        81 ~~~--~~~~~~~~----~-----~~~~~~~~~~~~~~~-------~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~  142 (262)
                      ...  -.......    +     .....-.........       ......+.|||.||++.++.+++...|..+|.|..
T Consensus       465 pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS  544 (725)
T KOG0110|consen  465 PKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEESSLARVAEDEETETKLFVKNLNFDTTLEDLEDLFSKQGTVLS  544 (725)
T ss_pred             ccccccccccccccccCcceecccccccccccCCccccccchhhhhccccchhhhhhcCCcccchhHHHHHHHhcCeEEE
Confidence            000  00000000    0     000000000000000       00111234999999999999999999999999999


Q ss_pred             Eeccc--C------CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        143 ADAHK--R------HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       143 ~~~~~--~------~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      +.|..  +      +.|+|||+|++.++|+.|+..|+|..++|..|.|..+.
T Consensus       545 ~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~  596 (725)
T KOG0110|consen  545 IEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE  596 (725)
T ss_pred             EEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence            87762  2      23999999999999999999999999999999998876

>KOG1548|consensus

Probab=99.75  E-value=8.7e-17  Score=124.87  Aligned_cols=182  Identities=20%  Similarity=0.279  Sum_probs=131.8

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeE--------EEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCce
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRD--------VIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGER   66 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~--------v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~   66 (262)
                      +.|.|||.|||.++|.+++.++|.+||.|..        |+|       .+|=|+|.|-..+++..|+..|++..|.|+.
T Consensus       133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~  212 (382)
T KOG1548|consen  133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKK  212 (382)
T ss_pred             cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcE
Confidence            4678999999999999999999999997742        344       3899999999999999999999999999999


Q ss_pred             EEEEEccCCCcccccCCCCCCCCCC--------CCCCCCCCCCCCCCCCCCCCCCceEEEcCCCC----CCC-------H
Q psy10320         67 VTVEIAKGIDRSQERGRRGYGSYRA--------PPPRRGWGHDRDDRYGPPTRSDHRLIVENLSS----RVS-------W  127 (262)
Q Consensus        67 l~v~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~----~~~-------~  127 (262)
                      |.|+.++...+..........+...        ....-.|.+..  .........++|.+.|+-.    ..+       .
T Consensus       213 ~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~--~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dlk  290 (382)
T KOG1548|consen  213 LRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDR--DDPSKARADRTVILKNMFTPEDFEKNPDLLNDLK  290 (382)
T ss_pred             EEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCc--cccccccCCcEEEeeecCCHHHhccCHHHHHHHH
Confidence            9999887543222111110000000        00001111111  1112233456888888732    122       3


Q ss_pred             HHHHHHhhcCCceEEEecc-cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        128 QDLKDFMRQVGEVCYADAH-KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       128 ~~l~~~f~~~g~i~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ++|.+.+.+||.|..|.+. ..+.|.+.|.|.+.++|..||..|+|.+|+|+.|.....
T Consensus       291 edl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~  349 (382)
T KOG1548|consen  291 EDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIW  349 (382)
T ss_pred             HHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEe
Confidence            6788889999999999888 456799999999999999999999999999999986543

>KOG0113|consensus

Probab=99.74  E-value=6.2e-17  Score=123.32  Aligned_cols=73  Identities=27%  Similarity=0.578  Sum_probs=68.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      -+||||+-|++.++|..|+..|+.||+|+.|.|        ++|||||+|+++.++..|....+|..|+|+.|.|.+-..
T Consensus       101 y~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvERg  180 (335)
T KOG0113|consen  101 YKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVERG  180 (335)
T ss_pred             cceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEeccc
Confidence            379999999999999999999999999999998        489999999999999999999999999999999987764


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus       181 R  181 (335)
T KOG0113|consen  181 R  181 (335)
T ss_pred             c
Confidence            3

>KOG4212|consensus

Probab=99.74  E-value=1.8e-16  Score=126.77  Aligned_cols=178  Identities=26%  Similarity=0.376  Sum_probs=132.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHh-cCCceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          5 KVYIGGLPYGVRERDLEKFVK-GYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~-~~G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .+||+|||+++.+.+|+.+|. +.|+|..|.+       .+|||.|+|+++|.+++|++.||...+.|++|.|+-..+..
T Consensus        46 ~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d~q  125 (608)
T KOG4212|consen   46 SVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHDEQ  125 (608)
T ss_pred             eEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCchh
Confidence            599999999999999999997 6899999998       48999999999999999999999999999999998776543


Q ss_pred             cccccCC-------------------CCCCCCC-------CCCCCC---------C--CCCCC-----------------
Q psy10320         77 RSQERGR-------------------RGYGSYR-------APPPRR---------G--WGHDR-----------------  102 (262)
Q Consensus        77 ~~~~~~~-------------------~~~~~~~-------~~~~~~---------~--~~~~~-----------------  102 (262)
                      .+.....                   .......       +.+...         .  ..+..                 
T Consensus       126 ~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~Flr  205 (608)
T KOG4212|consen  126 RDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSASFLR  205 (608)
T ss_pred             hhhhhheeeccCcccccCcceecccccccccCCCCccccCCCCcccccccccccCccccccccccchhhhcccchhhhhh
Confidence            2221100                   0000000       000000         0  00000                 


Q ss_pred             C-CCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCC
Q psy10320        103 D-DRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNG  177 (262)
Q Consensus       103 ~-~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g  177 (262)
                      + ....||.  ...+||.||.+.+....|.+.|.-.|.|..+.+-    +..+++|.++|+++-+|.+||..+++.-+..
T Consensus       206 ~~h~f~pPl--~~k~fvanl~~~vg~~kL~qvfgmAGkv~~vdf~idKeG~s~G~~vi~y~hpveavqaIsml~~~g~~~  283 (608)
T KOG4212|consen  206 SLHIFSPPL--HNKVFVANLDYKVGNKKLKQVFGMAGKVQSVDFSIDKEGNSRGFAVIEYDHPVEAVQAISMLDRQGLFD  283 (608)
T ss_pred             hccCCCCCc--cceeeeeccccccchHHHHHHhccceeeeeeceeeccccccCCeeEEEecchHHHHHHHHhhccCCCcc
Confidence            0 0112333  3479999999999999999999999999888664    6678999999999999999999999876666


Q ss_pred             ceEEEee
Q psy10320        178 RRIRLIE  184 (262)
Q Consensus       178 ~~~~v~~  184 (262)
                      ++..+..
T Consensus       284 ~~~~~Rl  290 (608)
T KOG4212|consen  284 RRMTVRL  290 (608)
T ss_pred             ccceeec
Confidence            6655543

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.73  E-value=2.3e-17  Score=125.93  Aligned_cols=74  Identities=26%  Similarity=0.424  Sum_probs=69.5

Q ss_pred             CccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-----eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          1 MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-----KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         1 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-----~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      |+.++|||+|||+.+|+++|+++|+.||+|.+|.|     .+|||||+|.++++|+.|| .|+|..|.|+.|.|.++...
T Consensus         2 ~~~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~Al-lLnG~~l~gr~V~Vt~a~~~   80 (260)
T PLN03120          2 MQVRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETAL-LLSGATIVDQSVTITPAEDY   80 (260)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHH-HhcCCeeCCceEEEEeccCC
Confidence            56789999999999999999999999999999999     3799999999999999999 69999999999999998754

>KOG0121|consensus

Probab=99.73  E-value=7.4e-18  Score=112.43  Aligned_cols=74  Identities=28%  Similarity=0.533  Sum_probs=69.3

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .+|||||+||+..+||++|.++|+++|+|..|.|        +-|||||+|-..++|+.|+..++|..++.+.|.|.|..
T Consensus        35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~  114 (153)
T KOG0121|consen   35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDA  114 (153)
T ss_pred             hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccc
Confidence            5799999999999999999999999999999998        36999999999999999999999999999999999876


Q ss_pred             CC
Q psy10320         74 GI   75 (262)
Q Consensus        74 ~~   75 (262)
                      .-
T Consensus       115 GF  116 (153)
T KOG0121|consen  115 GF  116 (153)
T ss_pred             cc
Confidence            43

>PF00076 RRM_1: RNA recognition motif

Probab=99.72  E-value=4e-17  Score=103.01  Aligned_cols=63  Identities=40%  Similarity=0.800  Sum_probs=59.6

Q ss_pred             EEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEE
Q psy10320          6 VYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVT   68 (262)
Q Consensus         6 l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~   68 (262)
                      |||+|||+++|+++|+++|+.||.|..+.+.       +++|||+|.+.++|+.|++.|+|..|.|+.|.
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            7999999999999999999999999998883       68999999999999999999999999999874

(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 ....

>KOG0113|consensus

Probab=99.71  E-value=3.6e-16  Score=119.21  Aligned_cols=76  Identities=22%  Similarity=0.327  Sum_probs=70.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ++-+||||+-|++++++..|+..|+.||+|..+.++     +.++|||||+|++..+...|.+..+|..|+|+.|.|...
T Consensus        99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE  178 (335)
T KOG0113|consen   99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE  178 (335)
T ss_pred             CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence            457899999999999999999999999999998776     678999999999999999999999999999999988655


Q ss_pred             C
Q psy10320        186 K  186 (262)
Q Consensus       186 ~  186 (262)
                      .
T Consensus       179 R  179 (335)
T KOG0113|consen  179 R  179 (335)
T ss_pred             c
Confidence            4

>KOG1190|consensus

Probab=99.71  E-value=7.5e-16  Score=122.18  Aligned_cols=183  Identities=20%  Similarity=0.328  Sum_probs=132.6

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-e--Cc-EEEEEeCChhhHHHHHHHhcCcccCC--ceEEEEEccCCC--
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-K--NG-FGFVEFEDYRDADDAVYELNGKSLLG--ERVTVEIAKGID--   76 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-~--~g-~afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~~~~~--   76 (262)
                      .++|+|+-+.+|-|.|.++|++||.|..|.- .  .+ .|+|+|.+.+.|+.|...|+|..|..  +.|.|.+++-..  
T Consensus       152 r~iie~m~ypVslDVLHqvFS~fG~VlKIiTF~Knn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sklt~Ln  231 (492)
T KOG1190|consen  152 RTIIENMFYPVSLDVLHQVFSKFGFVLKIITFTKNNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSKLTDLN  231 (492)
T ss_pred             EEEeccceeeeEHHHHHHHHhhcceeEEEEEEecccchhhhhhccchhhHHHHHHhccCCcccCceeEEEeehhhcccce
Confidence            5789999999999999999999999988765 2  23 58999999999999999999997754  466666665321  


Q ss_pred             --------cccccCCCCCC---------------CC-------CCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCC-CCC
Q psy10320         77 --------RSQERGRRGYG---------------SY-------RAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLS-SRV  125 (262)
Q Consensus        77 --------~~~~~~~~~~~---------------~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~-~~~  125 (262)
                              .+.....-+.+               ..       ..-+.............+.+. .++.|.|.||. +.+
T Consensus       232 vKynndkSRDyTnp~LP~gd~~p~l~~~~~aa~~~~~~~~g~p~aip~~~~~a~~a~~~~~~~~-~n~vllvsnln~~~V  310 (492)
T KOG1190|consen  232 VKYNNDKSRDYTNPDLPVGDGQPSLDQLMAAAFGSVPAVHGAPLAIPSGAAGANAADGKIESPS-ANVVLLVSNLNEEAV  310 (492)
T ss_pred             eeccccccccccCCCCCCCccccccchhhhccccccccccCCcccCCccchhhcccccccccCC-CceEEEEecCchhcc
Confidence                    11111000000               00       000000000000111122222 25678888875 568


Q ss_pred             CHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        126 SWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       126 ~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      |.+.|..+|.-||.|..|.|..+++..|.|+|.+...|+-|+.+|+|..+.|+.|+|...+..
T Consensus       311 T~d~LftlFgvYGdVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~  373 (492)
T KOG1190|consen  311 TPDVLFTLFGVYGDVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHT  373 (492)
T ss_pred             chhHHHHHHhhhcceEEEEeeecCCcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCc
Confidence            999999999999999999999888899999999999999999999999999999999888754

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

Probab=99.68  E-value=3.8e-15  Score=106.55  Aligned_cols=80  Identities=29%  Similarity=0.410  Sum_probs=72.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+.     +.++++|||+|++.++|+.|++.|++..|+|+.|.|..+
T Consensus        32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a  111 (144)
T PLN03134         32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA  111 (144)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence            346689999999999999999999999999999886     356899999999999999999999999999999999998


Q ss_pred             CCCCC
Q psy10320        186 KPRGG  190 (262)
Q Consensus       186 ~~~~~  190 (262)
                      .++..
T Consensus       112 ~~~~~  116 (144)
T PLN03134        112 NDRPS  116 (144)
T ss_pred             CcCCC
Confidence            76543

>KOG0114|consensus

Probab=99.67  E-value=4.4e-16  Score=100.07  Aligned_cols=74  Identities=27%  Similarity=0.454  Sum_probs=69.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-----eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-----KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-----~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      ..-|||.|||+.+|.+++.++|.+||.|..|.|     .+|.|||.|++..+|..|+..|+|..+.++.|.|-+..+..
T Consensus        18 nriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~~   96 (124)
T KOG0114|consen   18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPED   96 (124)
T ss_pred             heeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHHH
Confidence            457999999999999999999999999999999     48999999999999999999999999999999999887543

>KOG0124|consensus

Probab=99.66  E-value=6.7e-15  Score=115.35  Aligned_cols=73  Identities=21%  Similarity=0.459  Sum_probs=67.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .+|||..+.++++|+||+.+|+.||+|..|.+        .+||+||+|.+......||..||-..++|+.|.|..+...
T Consensus       211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vTP  290 (544)
T KOG0124|consen  211 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP  290 (544)
T ss_pred             heEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccccCC
Confidence            58999999999999999999999999999999        3899999999999999999999999999999999877654


Q ss_pred             C
Q psy10320         76 D   76 (262)
Q Consensus        76 ~   76 (262)
                      .
T Consensus       291 P  291 (544)
T KOG0124|consen  291 P  291 (544)
T ss_pred             C
Confidence            3

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.64  E-value=1.1e-15  Score=96.29  Aligned_cols=63  Identities=41%  Similarity=0.689  Sum_probs=57.2

Q ss_pred             EEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEE
Q psy10320          6 VYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVT   68 (262)
Q Consensus         6 l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~   68 (262)
                      |||+|||+.+++++|.++|+.||.|..+.+.       +++|||+|.++++|..|+..+++..|+|+.|.
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            7999999999999999999999999999883       58999999999999999999999999999874

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 ....

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.64  E-value=1.5e-15  Score=114.18  Aligned_cols=73  Identities=23%  Similarity=0.338  Sum_probs=68.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      +.||||+||++.+|+++|+++|+.||+|.+|.|.     .++|||+|.++++|+.|+ .|+|..|.++.|.|..+....
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~~y~   82 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWGQYE   82 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCcccc
Confidence            5699999999999999999999999999999994     589999999999999999 999999999999999877643

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.63  E-value=6.2e-15  Score=120.27  Aligned_cols=77  Identities=26%  Similarity=0.488  Sum_probs=69.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCC--ceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLG--ERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|++||+|..|.|.        ++||||+|.+.++|++||+.||+..+.+  +.|.|.++
T Consensus       193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a  272 (346)
T TIGR01659       193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLA  272 (346)
T ss_pred             cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEEC
Confidence            4789999999999999999999999999998883        5899999999999999999999998866  68999988


Q ss_pred             cCCCccc
Q psy10320         73 KGIDRSQ   79 (262)
Q Consensus        73 ~~~~~~~   79 (262)
                      .......
T Consensus       273 ~~~~~~~  279 (346)
T TIGR01659       273 EEHGKAK  279 (346)
T ss_pred             Ccccccc
Confidence            8665444

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).

>KOG0120|consensus

Probab=99.63  E-value=3.6e-15  Score=123.98  Aligned_cols=175  Identities=19%  Similarity=0.273  Sum_probs=125.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ...+||+|||..++++++.|++..||.+....+        .+||||.+|.++.....|+..|||+.+.++.|.|+.+..
T Consensus       289 ~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~  368 (500)
T KOG0120|consen  289 PNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIV  368 (500)
T ss_pred             cchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhc
Confidence            358999999999999999999999999887766        489999999999999999999999999999999998876


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCC--CCCC-CH-------HHHHHHhhcCCceEEEe
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENL--SSRV-SW-------QDLKDFMRQVGEVCYAD  144 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl--~~~~-~~-------~~l~~~f~~~g~i~~~~  144 (262)
                      .......+.....    .   ....-.. ...+....+...|.+.|+  |.++ .+       ++++..+..||.|..|.
T Consensus       369 g~~~~~~~~~~~~----~---~~~~i~~-~~~q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~  440 (500)
T KOG0120|consen  369 GASNANVNFNISQ----S---QVPGIPL-LMTQMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKFGAVRSVE  440 (500)
T ss_pred             cchhccccCCccc----c---ccccchh-hhcccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhcccCceeEEe
Confidence            4433322221000    0   0000000 000111222334444443  1111 12       45777788899999998


Q ss_pred             cccC--------CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        145 AHKR--------HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       145 ~~~~--------~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      +...        ..|..||+|++.++++.|+++|+|.+|.|+.+...+.
T Consensus       441 ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYy  489 (500)
T KOG0120|consen  441 IPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYY  489 (500)
T ss_pred             cCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEec
Confidence            7632        3678899999999999999999999999999877654

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

Probab=99.61  E-value=1.6e-14  Score=116.29  Aligned_cols=133  Identities=30%  Similarity=0.495  Sum_probs=101.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC-
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG-   74 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~-   74 (262)
                      ++|||+|||+.+|+++|.++|..||.|..|.+.        +|+|||+|.++++|..|+..++|..|.|+.|.|.+... 
T Consensus       116 ~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~~  195 (306)
T COG0724         116 NTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPA  195 (306)
T ss_pred             ceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccccc
Confidence            799999999999999999999999999888873        79999999999999999999999999999999999764 


Q ss_pred             -CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc
Q psy10320         75 -IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH  146 (262)
Q Consensus        75 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~  146 (262)
                       .........          ......................+++.+++..+...++...|..+|.+....+.
T Consensus       196 ~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  258 (306)
T COG0724         196 SQPRSELSNN----------LDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLP  258 (306)
T ss_pred             cccccccccc----------cchhhhccccccccccccccceeeccccccccchhHHHHhccccccceeeecc
Confidence             110000000          00000000011112223345689999999999999999999999998666655

>KOG0130|consensus

Probab=99.61  E-value=1.6e-15  Score=102.25  Aligned_cols=74  Identities=28%  Similarity=0.539  Sum_probs=69.2

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      --|||.++.+.+||++|.+.|..||+|+.|.+.        +|||+|+|++.++|+.|+..|||..+.|+.|.|.|+...
T Consensus        73 wIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~  152 (170)
T KOG0130|consen   73 WIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVK  152 (170)
T ss_pred             EEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEec
Confidence            368999999999999999999999999999983        899999999999999999999999999999999999865


Q ss_pred             Cc
Q psy10320         76 DR   77 (262)
Q Consensus        76 ~~   77 (262)
                      .+
T Consensus       153 gp  154 (170)
T KOG0130|consen  153 GP  154 (170)
T ss_pred             CC
Confidence            43

>PLN03213 repressor of silencing 3; Provisional

Probab=99.60  E-value=4e-15  Score=120.97  Aligned_cols=73  Identities=26%  Similarity=0.406  Sum_probs=68.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee----CcEEEEEeCCh--hhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK----NGFGFVEFEDY--RDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~----~g~afV~f~~~--~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      +.+||||||++.+|+++|..+|..||.|..|.|+    +|||||+|...  .++.+||..|||..|.|+.|.|..+++.
T Consensus        10 gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP~   88 (759)
T PLN03213         10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKEH   88 (759)
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccHH
Confidence            4699999999999999999999999999999996    79999999987  6899999999999999999999999854

>KOG0105|consensus

Probab=99.60  E-value=1e-14  Score=103.88  Aligned_cols=80  Identities=20%  Similarity=0.311  Sum_probs=72.3

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc--CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK--RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~--~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      .+.|||+|||.++.+.+|+++|-+||.|..|.+..  ....||||+|+++.+|..||..-+|..++|+.|+|++......
T Consensus         6 ~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr~   85 (241)
T KOG0105|consen    6 SRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGRS   85 (241)
T ss_pred             cceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCCc
Confidence            56899999999999999999999999999998873  4578999999999999999999999999999999999876544


Q ss_pred             CC
Q psy10320        191 GR  192 (262)
Q Consensus       191 ~~  192 (262)
                      ..
T Consensus        86 s~   87 (241)
T KOG0105|consen   86 SS   87 (241)
T ss_pred             cc
Confidence            33

>KOG0122|consensus

Probab=99.60  E-value=4.6e-15  Score=110.21  Aligned_cols=73  Identities=36%  Similarity=0.509  Sum_probs=69.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|-|.||+.+++|++|+++|.+||.|..|.|        .+|||||.|.+.++|.+||..|||.-++.-.|.|+|+++
T Consensus       189 ~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP  268 (270)
T KOG0122|consen  189 EATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKP  268 (270)
T ss_pred             cceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCC
Confidence            478999999999999999999999999999988        389999999999999999999999999999999999986


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus       269 ~  269 (270)
T KOG0122|consen  269 S  269 (270)
T ss_pred             C
Confidence            4

>KOG0125|consensus

Probab=99.59  E-value=4.5e-15  Score=114.70  Aligned_cols=79  Identities=29%  Similarity=0.580  Sum_probs=72.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~   77 (262)
                      .+|+|.|||+..-+.||+.+|.+||+|.+|.|      +|||+||.|++++||++|-++|||..+.|++|.|..+.....
T Consensus        97 kRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATarV~  176 (376)
T KOG0125|consen   97 KRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATARVH  176 (376)
T ss_pred             ceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchhhc
Confidence            48999999999999999999999999999999      499999999999999999999999999999999999987755


Q ss_pred             ccccC
Q psy10320         78 SQERG   82 (262)
Q Consensus        78 ~~~~~   82 (262)
                      .+...
T Consensus       177 n~K~~  181 (376)
T KOG0125|consen  177 NKKKK  181 (376)
T ss_pred             cCCcc
Confidence            44443

>KOG1456|consensus

Probab=99.56  E-value=7.7e-14  Score=109.72  Aligned_cols=162  Identities=22%  Similarity=0.254  Sum_probs=129.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHH--hcCcccCCceEEEEEccCCCcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYE--LNGKSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~--l~~~~~~g~~l~v~~~~~~~~~   78 (262)
                      +..|+|.||-..++|.+|.+.++.||.|..+.+.  +..|+|+|++.+.|+.++..  -+...+.|+.-.+.++......
T Consensus        31 spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~~r~alvefedi~~akn~Vnfaa~n~i~i~gq~Al~NyStsq~i~  110 (494)
T KOG1456|consen   31 SPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPHKRQALVEFEDIEGAKNCVNFAADNQIYIAGQQALFNYSTSQCIE  110 (494)
T ss_pred             CceEEEeccccccchhHHHHHHhcCCceEEEEeccccceeeeeeccccchhhheehhccCcccccCchhhcccchhhhhc
Confidence            4589999999999999999999999999998874  88999999999999999833  2335777887777777543332


Q ss_pred             cccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceE--EEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEE
Q psy10320         79 QERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRL--IVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVE  156 (262)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l--~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~  156 (262)
                      ....                         .+..++..|  .|-|.-+.++.+-|..++...|+|..+.|..++--.|.||
T Consensus       111 R~g~-------------------------es~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVE  165 (494)
T KOG1456|consen  111 RPGD-------------------------ESATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVE  165 (494)
T ss_pred             cCCC-------------------------CCCCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEeccceeeEEe
Confidence            2210                         011112233  3567778899999999999999999999998777789999


Q ss_pred             ecCHHHHHHHHHHhCCcccCC--ceEEEeecCCCC
Q psy10320        157 FESSSDMKKALDKLDNAELNG--RRIRLIEDKPRG  189 (262)
Q Consensus       157 f~~~~~a~~a~~~l~g~~~~g--~~~~v~~~~~~~  189 (262)
                      |++.+.|++|.+.|||..|+.  +.|+|++++|..
T Consensus       166 Fdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~r  200 (494)
T KOG1456|consen  166 FDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTR  200 (494)
T ss_pred             echhHHHHHHHhhcccccccccceeEEEEecCcce
Confidence            999999999999999998764  578888888753

>KOG0129|consensus

Probab=99.56  E-value=1e-13  Score=113.61  Aligned_cols=155  Identities=20%  Similarity=0.294  Sum_probs=114.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe----------eCc---EEEEEeCChhhHHHHHHHhcCcccCCceEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----------KNG---FGFVEFEDYRDADDAVYELNGKSLLGERVTV   69 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i----------~~g---~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v   69 (262)
                      ..+||||+||+.++|++|...|..||.+..=.-          ++|   |+|+.|+++..++..|.++.-   ....+.+
T Consensus       259 S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~---~~~~~yf  335 (520)
T KOG0129|consen  259 SRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSE---GEGNYYF  335 (520)
T ss_pred             ccceeecCCCccccHHHHHhhcccccceEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhh---cccceEE
Confidence            579999999999999999999999997632111          367   999999999998887766543   4455555


Q ss_pred             EEccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhh-cCCceEEEecc--
Q psy10320         70 EIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMR-QVGEVCYADAH--  146 (262)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~-~~g~i~~~~~~--  146 (262)
                      ..+....+.++-+.         .+...+..........+.++..|||||+||.-++.++|..+|+ -||.|+.+.|.  
T Consensus       336 ~vss~~~k~k~VQI---------rPW~laDs~fv~d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD  406 (520)
T KOG0129|consen  336 KVSSPTIKDKEVQI---------RPWVLADSDFVLDHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTD  406 (520)
T ss_pred             EEecCcccccceeE---------EeeEeccchhhhccCcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccC
Confidence            55554444332111         0111111111223444566788999999999999999999998 89999988775  


Q ss_pred             ---cCCCceEEEEecCHHHHHHHHHH
Q psy10320        147 ---KRHRNEGVVEFESSSDMKKALDK  169 (262)
Q Consensus       147 ---~~~~~~~~v~f~~~~~a~~a~~~  169 (262)
                         +.++|.|-|.|.+.....+||.+
T Consensus       407 ~k~KYPkGaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  407 PKLKYPKGAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             cccCCCCCcceeeecccHHHHHHHhh
Confidence               56899999999999999999964

>KOG0117|consensus

Probab=99.56  E-value=9.2e-15  Score=117.34  Aligned_cols=76  Identities=30%  Similarity=0.528  Sum_probs=72.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQE   80 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~   80 (262)
                      .|||+||+.++|++.|+++|+.||.|..|+..+.||||.|.+-++|.+||+.|||..|+|..|.|.++++..+.+.
T Consensus       261 vLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~k~k~  336 (506)
T KOG0117|consen  261 VLYVRNLMESTTEETLKKLFNEFGKVERVKKPRDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVDKKKK  336 (506)
T ss_pred             eeeeeccchhhhHHHHHHHHHhccceEEeecccceeEEeecchHHHHHHHHHhcCceecCceEEEEecCChhhhcc
Confidence            6999999999999999999999999999999999999999999999999999999999999999999998765543

>smart00362 RRM_2 RNA recognition motif

Probab=99.56  E-value=3.1e-14  Score=89.90  Aligned_cols=65  Identities=40%  Similarity=0.720  Sum_probs=61.1

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEE
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTV   69 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v   69 (262)
                      +|||+|||+.+++++|+++|..||.|..+.+.      +++|||+|.+.++|+.|+..+++..|.|+.|.|
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v   71 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV   71 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence            69999999999999999999999999998884      389999999999999999999999999999876

>KOG1456|consensus

Probab=99.55  E-value=1.1e-12  Score=103.37  Aligned_cols=179  Identities=21%  Similarity=0.271  Sum_probs=130.9

Q ss_pred             EcCCCCCCCHHHHHHHHhcCCceeEEEeeC---cEEEEEeCChhhHHHHHHHhcCcccC-C-ceEEEEEccCCCccccc-
Q psy10320          8 IGGLPYGVRERDLEKFVKGYGRIRDVILKN---GFGFVEFEDYRDADDAVYELNGKSLL-G-ERVTVEIAKGIDRSQER-   81 (262)
Q Consensus         8 V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~---g~afV~f~~~~~a~~a~~~l~~~~~~-g-~~l~v~~~~~~~~~~~~-   81 (262)
                      |-|--+.+|.+.|.++....|+|..|.|.+   -.|.|||++.+.|++|.+.|||..|. | +.|+|+++++......+ 
T Consensus       127 IlNp~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~rlnV~kn  206 (494)
T KOG1456|consen  127 ILNPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTRLNVQKN  206 (494)
T ss_pred             eecCccccchhhhhhhcCCCCceEEEEEEeccceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcceeeeeec
Confidence            445557899999999999999999999842   37999999999999999999998774 4 58999999875321111 


Q ss_pred             ----CC-------CCCC-------CCCC----------------------------CCCCCCCCCCCC---CCCCCCCCC
Q psy10320         82 ----GR-------RGYG-------SYRA----------------------------PPPRRGWGHDRD---DRYGPPTRS  112 (262)
Q Consensus        82 ----~~-------~~~~-------~~~~----------------------------~~~~~~~~~~~~---~~~~~~~~~  112 (262)
                          +.       ....       ....                            +++..+......   ........+
T Consensus       207 d~DtwDyTlp~~~~~~~~g~~~~~r~~~p~~~~~~pss~~G~h~~y~sg~~~~p~~~~P~r~~~~~~~~~g~a~p~g~~~  286 (494)
T KOG1456|consen  207 DKDTWDYTLPDLRGPYDPGRNHYDRQRQPAPLGYHPSSRGGGHSGYYSGDRHGPPHPPPSRYRDGYRDGRGYASPGGGAP  286 (494)
T ss_pred             CCccccccCCCCCCCCCCCCCCCccccCCCccCCChhhcCCCCCCCcccccCCCCCCCCCCCccccccCCCCCCCCCCCC
Confidence                00       0000       0000                            000000000000   000112334


Q ss_pred             CceEEEcCCCC-CCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSS-RVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~-~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      .+.+.|.+|.. .++.+.|..+|-.||.|..+.++....|-|.|++.+....+.|+.+||+..+-|.+|.|...+
T Consensus       287 g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~Sk  361 (494)
T KOG1456|consen  287 GCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSK  361 (494)
T ss_pred             CcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecccceeEEEcCcHHHHHHHHHHhccCccccceEEEeecc
Confidence            67899999986 467788999999999999999999899999999999999999999999999999999887654

>PF00076 RRM_1: RNA recognition motif

Probab=99.54  E-value=2.2e-14  Score=90.34  Aligned_cols=66  Identities=38%  Similarity=0.647  Sum_probs=61.4

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEE
Q psy10320        116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR  181 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~  181 (262)
                      |||+|||..+++++|.++|++||.|..+.+..    ...++|||+|.+.++|..|++.|+|..++|+.|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            79999999999999999999999998888774    4678999999999999999999999999999875

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

>KOG4212|consensus

Probab=99.53  E-value=1.1e-12  Score=105.29  Aligned_cols=73  Identities=33%  Similarity=0.585  Sum_probs=66.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .|+|+|.|||.++|++.|++-|..||.|.+++|....+..+.|.|.++++|+.|+..|+|..+.|+.|.|.++
T Consensus       536 a~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~GkskGVVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~  608 (608)
T KOG4212|consen  536 ACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENGKSKGVVRFFSPEDAERACALMNGSRLDGRNIKVTYF  608 (608)
T ss_pred             ccEEEEecCCccccHHHHHHHHHhccceehhhhhccCCccceEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence            5789999999999999999999999999999997555556699999999999999999999999999998763

>KOG0149|consensus

Probab=99.52  E-value=2.3e-14  Score=106.13  Aligned_cols=70  Identities=26%  Similarity=0.589  Sum_probs=62.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      |+||||||++.++.++|+++|+.||+|.+..|        ++||+||.|.+.+.|.+|+ .=.+-.|+|++..|.++.-
T Consensus        13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc-~dp~piIdGR~aNcnlA~l   90 (247)
T KOG0149|consen   13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRAC-KDPNPIIDGRKANCNLASL   90 (247)
T ss_pred             EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHh-cCCCCcccccccccchhhh
Confidence            79999999999999999999999999998777        4899999999999999999 4445689999988888764

>KOG0125|consensus

Probab=99.51  E-value=9.6e-14  Score=107.44  Aligned_cols=79  Identities=24%  Similarity=0.396  Sum_probs=73.0

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc---cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH---KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ....+.|+|.|+|+...+.||+.+|.+||+|.+|.|+   ..++||+||+|++.++|.+|-++|||..+.|++|.|+.+.
T Consensus        93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~AT  172 (376)
T KOG0125|consen   93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNAT  172 (376)
T ss_pred             CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccc
Confidence            3446799999999999999999999999999999998   4578999999999999999999999999999999998887


Q ss_pred             CC
Q psy10320        187 PR  188 (262)
Q Consensus       187 ~~  188 (262)
                      .+
T Consensus       173 ar  174 (376)
T KOG0125|consen  173 AR  174 (376)
T ss_pred             hh
Confidence            65

>KOG0109|consensus

Probab=99.50  E-value=3e-14  Score=108.49  Aligned_cols=78  Identities=22%  Similarity=0.425  Sum_probs=73.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQE   80 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~   80 (262)
                      .|+|+|+||.+.++.+||++.|++||+|.+|.|.++|+||.|...++|..|+..|||..|.|+++.|+++...-....
T Consensus        78 stkl~vgNis~tctn~ElRa~fe~ygpviecdivkdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlrtap  155 (346)
T KOG0109|consen   78 STKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRTAP  155 (346)
T ss_pred             ccccccCCCCccccCHHHhhhhcccCCceeeeeecceeEEEEeeccchHHHHhcccccccccceeeeeeeccccccCC
Confidence            589999999999999999999999999999999999999999999999999999999999999999999986644443

>PF13893 RRM_5: RNA recognition motif

Probab=99.50  E-value=1.6e-13  Score=82.12  Aligned_cols=53  Identities=34%  Similarity=0.647  Sum_probs=48.9

Q ss_pred             HHHHHhcCCceeEEEee--C-cEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320         20 LEKFVKGYGRIRDVILK--N-GFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus        20 l~~~F~~~G~v~~v~i~--~-g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      |.++|++||+|..|.+.  + ++|||+|.+.++|+.|++.|||..|.|+.|.|.|+
T Consensus         1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            68899999999999995  3 99999999999999999999999999999999985

(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 ....

>KOG0126|consensus

Probab=99.50  E-value=2.6e-15  Score=106.58  Aligned_cols=76  Identities=37%  Similarity=0.647  Sum_probs=70.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +..|||||||+.+||.||..+|+.||+|++|.+        ++||||+.|++..+...|+..|||..|.|+.|.|.....
T Consensus        35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~~  114 (219)
T KOG0126|consen   35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVSN  114 (219)
T ss_pred             ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeeccc
Confidence            468999999999999999999999999999998        389999999999999999999999999999999998876


Q ss_pred             CCcc
Q psy10320         75 IDRS   78 (262)
Q Consensus        75 ~~~~   78 (262)
                      ....
T Consensus       115 Yk~p  118 (219)
T KOG0126|consen  115 YKKP  118 (219)
T ss_pred             ccCC
Confidence            5443

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

Probab=99.49  E-value=3e-13  Score=85.78  Aligned_cols=67  Identities=42%  Similarity=0.754  Sum_probs=62.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEE
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEI   71 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~   71 (262)
                      +|+|+|||+.+++++|.++|+.||.|..+.+.       .++|||+|.+.++|..|+..+++..+.|+.|.|.+
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            58999999999999999999999999998884       58999999999999999999999999999998864

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).

>KOG0111|consensus

Probab=99.48  E-value=3.4e-14  Score=103.97  Aligned_cols=75  Identities=36%  Similarity=0.631  Sum_probs=70.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .|||||+|...+||..|...|-+||.|++|.++        +|||||+|...|+|..||..||+..+.|+.|.|.++++.
T Consensus        11 rtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~   90 (298)
T KOG0111|consen   11 RTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPE   90 (298)
T ss_pred             eeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCc
Confidence            599999999999999999999999999999994        899999999999999999999999999999999999976


Q ss_pred             Ccc
Q psy10320         76 DRS   78 (262)
Q Consensus        76 ~~~   78 (262)
                      ...
T Consensus        91 kik   93 (298)
T KOG0111|consen   91 KIK   93 (298)
T ss_pred             ccc
Confidence            543

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.46  E-value=6.4e-13  Score=101.81  Aligned_cols=74  Identities=19%  Similarity=0.338  Sum_probs=67.9

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccC--CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR--HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~--~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||+.+++++|+++|+.||.|..+.+...  .+++|||+|.++++|..||. |+|..|.|+.|.|..+..
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~   79 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAED   79 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccC
Confidence            458999999999999999999999999999998743  57999999999999999995 999999999999988753

>smart00360 RRM RNA recognition motif

Probab=99.45  E-value=3.3e-13  Score=84.79  Aligned_cols=63  Identities=43%  Similarity=0.729  Sum_probs=58.3

Q ss_pred             EcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEE
Q psy10320          8 IGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVE   70 (262)
Q Consensus         8 V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~   70 (262)
                      |+|||..+++++|+++|+.||.|..+.+.        +++|||+|.+.++|..|+..|++..+.|+.|.|.
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            68999999999999999999999999883        4799999999999999999999999999998773

>KOG0122|consensus

Probab=99.45  E-value=1.5e-12  Score=97.05  Aligned_cols=78  Identities=23%  Similarity=0.322  Sum_probs=72.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ...++|-|.||+.++++.+|+++|..||.|..+.+.     +.++|||||.|...++|.+||..|||.-++.-.|.|+.+
T Consensus       187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws  266 (270)
T KOG0122|consen  187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS  266 (270)
T ss_pred             CccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence            346789999999999999999999999999998876     678999999999999999999999999999999999999


Q ss_pred             CCC
Q psy10320        186 KPR  188 (262)
Q Consensus       186 ~~~  188 (262)
                      +|+
T Consensus       267 kP~  269 (270)
T KOG0122|consen  267 KPS  269 (270)
T ss_pred             CCC
Confidence            875

>KOG0130|consensus

Probab=99.45  E-value=3.2e-13  Score=91.27  Aligned_cols=78  Identities=21%  Similarity=0.293  Sum_probs=71.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .+.|||.++...+++++|.+.|..||+|..+++.     +.-+|||+|+|++..+|++|++++||..+.|..|.|.++--
T Consensus        72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv  151 (170)
T KOG0130|consen   72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFV  151 (170)
T ss_pred             eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEe
Confidence            5799999999999999999999999999998876     55689999999999999999999999999999999988865


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      .+.
T Consensus       152 ~gp  154 (170)
T KOG0130|consen  152 KGP  154 (170)
T ss_pred             cCC
Confidence            544

>KOG0120|consensus

Probab=99.45  E-value=5.2e-13  Score=111.26  Aligned_cols=174  Identities=16%  Similarity=0.278  Sum_probs=130.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcC-----------C-ceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEE
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGY-----------G-RIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTV   69 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~-----------G-~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v   69 (262)
                      -.+||+++|+.++++.+..+|..-           | .|..+.+  .+++|||+|.+.++|..|+ .+++..|.|..+.+
T Consensus       176 ~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n~~~nfa~ie~~s~~~at~~~-~~~~~~f~g~~~~~  254 (500)
T KOG0120|consen  176 RRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLNLEKNFAFIEFRSISEATEAM-ALDGIIFEGRPLKI  254 (500)
T ss_pred             hhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeecccccceeEEecCCCchhhhh-cccchhhCCCCcee
Confidence            378999999999999999999642           3 3666666  4899999999999999999 99999999998887


Q ss_pred             EEccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc---
Q psy10320         70 EIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH---  146 (262)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---  146 (262)
                      .-............        ...+ ...-.............+.++|++||..+++.++.++...||.+....+.   
T Consensus       255 ~r~~d~~~~p~~~~--------~~~~-~~~~~~~~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~  325 (500)
T KOG0120|consen  255 RRPHDYQPVPGITL--------SPSQ-LGKVGLLPASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDS  325 (500)
T ss_pred             cccccccCCccchh--------hhcc-ccccCCcccccCcccccchhhhccCcCccCHHHHHHHHHhcccchhheeeccc
Confidence            64443221111000        0000 00000001111123345689999999999999999999999988766554   


Q ss_pred             --cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        147 --KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       147 --~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                        +.+++|||.+|.++..+..|++.|||+.+++..|.|..+-.
T Consensus       326 ~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~  368 (500)
T KOG0120|consen  326 ATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIV  368 (500)
T ss_pred             ccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhc
Confidence              56789999999999999999999999999999999876654

>KOG1365|consensus

Probab=99.44  E-value=1.9e-13  Score=107.85  Aligned_cols=176  Identities=19%  Similarity=0.241  Sum_probs=119.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcC----CceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGY----GRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~----G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      -|-+.+||+++|+.||.+||..-    |.+..|.+       ..|-|||.|..+++|+.|+ .-|...++-+.|.+-.+.
T Consensus       163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL-~khrq~iGqRYIElFRST  241 (508)
T KOG1365|consen  163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFAL-RKHRQNIGQRYIELFRST  241 (508)
T ss_pred             EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHH-HHHHHHHhHHHHHHHHHh
Confidence            46678999999999999999632    22333333       2689999999999999999 556666666666654443


Q ss_pred             CCCcccccCC---CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCc-eEE--Eecc-
Q psy10320         74 GIDRSQERGR---RGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGE-VCY--ADAH-  146 (262)
Q Consensus        74 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~-i~~--~~~~-  146 (262)
                      ..+-...-..   .+......    .......+....|+.....+|.+.+||+.++.++|-++|..|.. |..  +++. 
T Consensus       242 aaEvqqvlnr~~s~pLi~~~~----sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~  317 (508)
T KOG1365|consen  242 AAEVQQVLNREVSEPLIPGLT----SPLLPGGPARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVL  317 (508)
T ss_pred             HHHHHHHHHhhccccccCCCC----CCCCCCCccccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEE
Confidence            2221111100   01111000    00111113344555555678999999999999999999998873 222  4443 


Q ss_pred             ---cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        147 ---KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       147 ---~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                         +.+.|.|||+|.+.+.|..|....+.+....+.|.|-.+
T Consensus       318 N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~  359 (508)
T KOG1365|consen  318 NGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPC  359 (508)
T ss_pred             cCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeec
Confidence               667899999999999999999988888888888888543

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.43  E-value=8.6e-13  Score=82.98  Aligned_cols=66  Identities=33%  Similarity=0.562  Sum_probs=59.0

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCceEEEecccC----CCceEEEEecCHHHHHHHHHHhCCcccCCceEE
Q psy10320        116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR----HRNEGVVEFESSSDMKKALDKLDNAELNGRRIR  181 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~----~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~  181 (262)
                      |||+|||..+++++|.++|..+|.|..+.+...    .+++|||+|.+.++|..|+..+++..++|+.|.
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            789999999999999999999999999988744    478999999999999999999999999999874

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 ....

>KOG0114|consensus

Probab=99.41  E-value=2.7e-12  Score=82.74  Aligned_cols=78  Identities=22%  Similarity=0.355  Sum_probs=70.1

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc--cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH--KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      +..+..|||.|||+.++.+++.++|..||.|..+.+-  ...+|-|||.|++..+|.+|+++|.|..+.++.+.|.+-.+
T Consensus        15 pevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~   94 (124)
T KOG0114|consen   15 PEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQP   94 (124)
T ss_pred             hhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCH
Confidence            3345689999999999999999999999999999875  45689999999999999999999999999999999876654

>KOG0121|consensus

Probab=99.40  E-value=1.2e-12  Score=87.68  Aligned_cols=77  Identities=22%  Similarity=0.225  Sum_probs=69.6

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..++|||+||...+++++|.++|..+|+|..|.+-     ..+.|+|||+|...++|..|+..++|..++.+.|.+..+.
T Consensus        35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~  114 (153)
T KOG0121|consen   35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDA  114 (153)
T ss_pred             hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccc
Confidence            46799999999999999999999999999887553     4578999999999999999999999999999999998765


Q ss_pred             CC
Q psy10320        187 PR  188 (262)
Q Consensus       187 ~~  188 (262)
                      .-
T Consensus       115 GF  116 (153)
T KOG0121|consen  115 GF  116 (153)
T ss_pred             cc
Confidence            43

>PLN03213 repressor of silencing 3; Provisional

Probab=99.39  E-value=1.9e-12  Score=105.68  Aligned_cols=75  Identities=24%  Similarity=0.357  Sum_probs=69.1

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-cCCCceEEEEecCH--HHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-KRHRNEGVVEFESS--SDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-~~~~~~~~v~f~~~--~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ...|||+||++.+++++|...|..||.|..+.|+ ...+|||||+|...  .++.+||..|||..+.|+.|+|..+++
T Consensus        10 gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP   87 (759)
T PLN03213         10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE   87 (759)
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence            5689999999999999999999999999999988 22389999999987  789999999999999999999998875

>KOG0132|consensus

Probab=99.38  E-value=2.3e-12  Score=110.21  Aligned_cols=75  Identities=25%  Similarity=0.558  Sum_probs=70.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~   77 (262)
                      +||||||+|+.+++|.||.++|+.||+|..|.+  .++||||.+..-.+|.+|+..|++..+.++.|+|.|+..+..
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~  497 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGP  497 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCc
Confidence            689999999999999999999999999999998  489999999999999999999999999999999999986533

>KOG0108|consensus

Probab=99.37  E-value=1.6e-12  Score=107.73  Aligned_cols=74  Identities=32%  Similarity=0.608  Sum_probs=69.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      +.|||||||+.+++++|..+|+..|.|..+++        .+||||++|.++++|..|++.|||..+.|+.|.|.|+...
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~   98 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR   98 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence            78999999999999999999999999999998        3899999999999999999999999999999999999865


Q ss_pred             Cc
Q psy10320         76 DR   77 (262)
Q Consensus        76 ~~   77 (262)
                      ..
T Consensus        99 ~~  100 (435)
T KOG0108|consen   99 KN  100 (435)
T ss_pred             ch
Confidence            43

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.36  E-value=6.2e-12  Score=94.88  Aligned_cols=73  Identities=19%  Similarity=0.267  Sum_probs=66.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc--CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK--RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~--~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..+|||+||++.+++++|+++|+.||+|..+.+..  ...++|||+|.+++++..|+ .|+|..|.+..|.|....
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~   79 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG   79 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence            56999999999999999999999999999999883  45689999999999999999 599999999999997654

>smart00362 RRM_2 RNA recognition motif

Probab=99.35  E-value=8.2e-12  Score=78.57  Aligned_cols=68  Identities=34%  Similarity=0.548  Sum_probs=62.4

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecccC---CCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR---HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~---~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      +|+|.|||..+++++|.++|.+||.+..+.+...   ..++|||+|.+.++|..|+..++|..+.|..+.|
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v   71 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV   71 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence            4899999999999999999999999998887743   3799999999999999999999999999998876

>KOG4211|consensus

Probab=99.34  E-value=2.5e-11  Score=99.19  Aligned_cols=178  Identities=22%  Similarity=0.331  Sum_probs=117.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeE-EEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRD-VIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~-v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .+|-+.+||+.+|++||.+||+..-.|.. |.+       +.|-|||+|++.+.|+.|+ .-|...|..+.|.|..+...
T Consensus       104 ~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al-~rhre~iGhRYIEvF~Ss~~  182 (510)
T KOG4211|consen  104 GVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIAL-GRHRENIGHRYIEVFRSSRA  182 (510)
T ss_pred             ceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHH-HHHHHhhccceEEeehhHHH
Confidence            57999999999999999999998754444 333       3689999999999999999 66778889999998776532


Q ss_pred             CcccccCC---------------CCCCCCCCCCCCCCCC-----------------------------CC--C-------
Q psy10320         76 DRSQERGR---------------RGYGSYRAPPPRRGWG-----------------------------HD--R-------  102 (262)
Q Consensus        76 ~~~~~~~~---------------~~~~~~~~~~~~~~~~-----------------------------~~--~-------  102 (262)
                      ........               .+.+......+...+.                             ..  .       
T Consensus       183 e~~~~~~~~~~~~~rpGpy~~~~a~Rg~~d~~~~~~~~~~~~r~g~~~~g~~g~~~~~~~~d~~~~gs~~~~~~~~~~~~  262 (510)
T KOG4211|consen  183 EVKRAAGPGDGRVGRPGPYDRPGAPRGGYDYGQGRDPGRNATRYGAGGEGYYGFSRYPSLQDYGNFGSYGGGRDPNYPVS  262 (510)
T ss_pred             HHHhhccccccccCCCCccccccCCccccccccccCCCccccccccccCCccccccCccccccccccccccccccccCCC
Confidence            21111100               0000000000000000                             00  0       


Q ss_pred             --C------CCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceE-EEec--ccCCCceEEEEecCHHHHHHHHHHhC
Q psy10320        103 --D------DRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVC-YADA--HKRHRNEGVVEFESSSDMKKALDKLD  171 (262)
Q Consensus       103 --~------~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~-~~~~--~~~~~~~~~v~f~~~~~a~~a~~~l~  171 (262)
                        +      .....-......++..+||+..++.+|..+|...-.+. .+.+  .+...+.|+|+|++.++|..|+. -+
T Consensus       263 ~g~~~~g~~g~~~~~~~~g~fv~MRGlpy~a~~~di~nfFspl~p~~v~i~ig~dGr~TGEAdveF~t~edav~Ams-kd  341 (510)
T KOG4211|consen  263 SGPHRQGGAGDYGNGGPGGHFVHMRGLPYDATENDIANFFSPLNPYRVHIEIGPDGRATGEADVEFATGEDAVGAMG-KD  341 (510)
T ss_pred             CCcccCCCcccccCCCCCCceeeecCCCccCCCcchhhhcCCCCceeEEEEeCCCCccCCcceeecccchhhHhhhc-cC
Confidence              0      00000011125788899999999999999999876552 2222  26778999999999999999995 57


Q ss_pred             CcccCCceEEEe
Q psy10320        172 NAELNGRRIRLI  183 (262)
Q Consensus       172 g~~~~g~~~~v~  183 (262)
                      +..+..+-+.+-
T Consensus       342 ~anm~hrYVElF  353 (510)
T KOG4211|consen  342 GANMGHRYVELF  353 (510)
T ss_pred             CcccCcceeeec
Confidence            778887777653

>KOG4660|consensus

Probab=99.34  E-value=1.7e-12  Score=107.43  Aligned_cols=172  Identities=22%  Similarity=0.223  Sum_probs=112.6

Q ss_pred             CccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe---eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCc
Q psy10320          1 MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         1 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i---~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~   77 (262)
                      |...+|+|-|||..|++++|.++|+.||+|..|..   ..|.+||+|-|+.+|+.|+.+|++..|.|+.|......    
T Consensus        73 ~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k~~~~~----  148 (549)
T KOG4660|consen   73 MNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIKRPGGA----  148 (549)
T ss_pred             CccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhcCCCcc----
Confidence            45679999999999999999999999999999887   48999999999999999999999999999998811111    


Q ss_pred             ccccCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCC-CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEE
Q psy10320         78 SQERGRRGYGSYRAPPPRRGWGHDRD-DRYGPPTRS-DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVV  155 (262)
Q Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v  155 (262)
                      ........  +      ..+|..-.. ....++..- ...++ +.|++..+..-++.+++-+|.+.. ...+.....-|+
T Consensus       149 ~~~~~~~~--~------~~~~~~~~~p~a~s~pgg~~~~~~~-g~l~P~~s~~~~~~~~~~~~~~~~-~~~~~~~hq~~~  218 (549)
T KOG4660|consen  149 RRAMGLQS--G------TSFLNHFGSPLANSPPGGWPRGQLF-GMLSPTRSSILLEHISSVDGSSPG-RETPLLNHQRFV  218 (549)
T ss_pred             cccchhcc--c------chhhhhccchhhcCCCCCCcCCcce-eeeccchhhhhhhcchhccCcccc-ccccchhhhhhh
Confidence            11100000  0      111111000 000111000 11222 228888888778888888887766 444433346788


Q ss_pred             EecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        156 EFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       156 ~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      +|.+..++..++..+ |..+.+....+....+
T Consensus       219 ~~~~~~s~a~~~~~~-G~~~s~~~~v~t~S~~  249 (549)
T KOG4660|consen  219 EFADNRSYAFSEPRG-GFLISNSSGVITFSGP  249 (549)
T ss_pred             hhccccchhhcccCC-ceecCCCCceEEecCC
Confidence            888888886665533 5555666555555544

>KOG0111|consensus

Probab=99.31  E-value=2.3e-12  Score=94.48  Aligned_cols=77  Identities=31%  Similarity=0.464  Sum_probs=72.6

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||++|..++++.-|...|-.||.|..+.+.     .+.++++||+|...++|.+||+-||+.++.|+.|+|++++|
T Consensus        10 KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP   89 (298)
T KOG0111|consen   10 KRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKP   89 (298)
T ss_pred             ceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCC
Confidence            5699999999999999999999999999999886     56899999999999999999999999999999999999988


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      ..
T Consensus        90 ~k   91 (298)
T KOG0111|consen   90 EK   91 (298)
T ss_pred             cc
Confidence            64

>KOG0415|consensus

Probab=99.30  E-value=3.5e-12  Score=99.87  Aligned_cols=75  Identities=17%  Similarity=0.411  Sum_probs=70.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||..|+|-+|.++|.-+|+.||+|..|.+.        -.||||+|++.++|++|.-.|++..|+++.|.|.++..
T Consensus       239 eNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQS  318 (479)
T KOG0415|consen  239 ENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQS  318 (479)
T ss_pred             cceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhh
Confidence            4789999999999999999999999999999984        46999999999999999999999999999999999987


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ..+
T Consensus       319 Vsk  321 (479)
T KOG0415|consen  319 VSK  321 (479)
T ss_pred             hhh
Confidence            655

>KOG2193|consensus

Probab=99.30  E-value=8e-13  Score=105.70  Aligned_cols=150  Identities=23%  Similarity=0.395  Sum_probs=126.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhc--CCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCc-ccCCceEEEEEccCCCccc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKG--YGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK-SLLGERVTVEIAKGIDRSQ   79 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~--~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~-~~~g~~l~v~~~~~~~~~~   79 (262)
                      +++||++||.+.++..+|..+|..  .|--..+.+..|||||.+.+...|.+|++.++|. .+.|+.+.|..+.++... 
T Consensus         1 mnklyignL~p~~~psdl~svfg~ak~~~~g~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkqr-   79 (584)
T KOG2193|consen    1 MNKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQR-   79 (584)
T ss_pred             CCcccccccCCCCChHHHHHHhccccCCCCcceeeecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHHH-
Confidence            468999999999999999999974  4555667788999999999999999999999996 889999999988765333 


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCC--CceEEEEe
Q psy10320         80 ERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRH--RNEGVVEF  157 (262)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~--~~~~~v~f  157 (262)
                                                       ...+.|.|+|....++.+..++.+||.+..+......  .....|.|
T Consensus        80 ---------------------------------srk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty  126 (584)
T KOG2193|consen   80 ---------------------------------SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTY  126 (584)
T ss_pred             ---------------------------------hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHH
Confidence                                             3357899999999999999999999999888665322  23445788


Q ss_pred             cCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        158 ESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       158 ~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ...+.++.||.+|+|..+.+..+.+.+-.
T Consensus       127 ~~~~~~~~ai~kl~g~Q~en~~~k~~YiP  155 (584)
T KOG2193|consen  127 SAQQQHRQAIHKLNGPQLENQHLKVGYIP  155 (584)
T ss_pred             HHHHHHHHHHHhhcchHhhhhhhhcccCc
Confidence            99999999999999999999888886543

>PF13893 RRM_5: RNA recognition motif

Probab=99.28  E-value=2.6e-11  Score=72.47  Aligned_cols=56  Identities=30%  Similarity=0.496  Sum_probs=50.9

Q ss_pred             HHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        130 LKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       130 l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      |.++|++||.|..+.+.....++|||+|.+.++|..|+..|||..++|+.|.|.++
T Consensus         1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            57899999999999998766799999999999999999999999999999999764

(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 ....

>KOG4454|consensus

Probab=99.28  E-value=9e-13  Score=96.53  Aligned_cols=139  Identities=22%  Similarity=0.259  Sum_probs=108.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      ..||||+||...++|+-|.++|-.-|+|..|.|.      ..||||.|+++-.+.-|++.|||..+.+..|.|.+-....
T Consensus         9 drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~s   88 (267)
T KOG4454|consen    9 DRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGNS   88 (267)
T ss_pred             hhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhcccccCCC
Confidence            4699999999999999999999999999999994      2499999999999999999999999999999887554211


Q ss_pred             cccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCce
Q psy10320         77 RSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNE  152 (262)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~  152 (262)
                      ..                                         -|...++++.+.+.|...|++..+.+.    +.+..+
T Consensus        89 ha-----------------------------------------pld~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~  127 (267)
T KOG4454|consen   89 HA-----------------------------------------PLDERVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNF  127 (267)
T ss_pred             cc-----------------------------------------hhhhhcchhhheeeecccCCCCCccccccccCCccCc
Confidence            10                                         134556667777778888877766554    446778


Q ss_pred             EEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        153 GVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       153 ~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      +|+.+......-.++....+....-+++.+
T Consensus       128 ~~~~~qr~~~~P~~~~~y~~l~~~~~~~~~  157 (267)
T KOG4454|consen  128 GFVTYQRLCAVPFALDLYQGLELFQKKVTI  157 (267)
T ss_pred             cchhhhhhhcCcHHhhhhcccCcCCCCccc
Confidence            888887777777777777776655554443

>KOG0131|consensus

Probab=99.25  E-value=2.3e-11  Score=86.79  Aligned_cols=76  Identities=30%  Similarity=0.424  Sum_probs=70.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+||+..++++.|.++|-+.|+|..+++.     ....||||++|.++++|.-|+..|+...+.|++|+|..+
T Consensus         7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka   86 (203)
T KOG0131|consen    7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA   86 (203)
T ss_pred             CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence            346799999999999999999999999999999886     447899999999999999999999999999999999887


Q ss_pred             C
Q psy10320        186 K  186 (262)
Q Consensus       186 ~  186 (262)
                      .
T Consensus        87 s   87 (203)
T KOG0131|consen   87 S   87 (203)
T ss_pred             c
Confidence            6

>smart00361 RRM_1 RNA recognition motif

Probab=99.23  E-value=4.1e-11  Score=75.06  Aligned_cols=53  Identities=28%  Similarity=0.529  Sum_probs=47.7

Q ss_pred             HHHHHHHHh----cCCceeEEE-e----------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEE
Q psy10320         17 ERDLEKFVK----GYGRIRDVI-L----------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTV   69 (262)
Q Consensus        17 ~~~l~~~F~----~~G~v~~v~-i----------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v   69 (262)
                      +++|+++|.    .||.|..|. +          ++|+|||+|.+.++|..|+..|||..|.|+.|.+
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            678999998    999999884 2          2789999999999999999999999999999876

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

Probab=99.23  E-value=1.1e-10  Score=73.74  Aligned_cols=69  Identities=33%  Similarity=0.532  Sum_probs=63.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCC----CceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRH----RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~----~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      +|+|.|||..+++++|.++|+.+|.|..+.+....    .++|||+|.+.++|..|+..+++..+.|..+.|.
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~   73 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE   73 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence            47899999999999999999999999998887443    7899999999999999999999999999998875

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).

>KOG0146|consensus

Probab=99.22  E-value=1.4e-11  Score=93.06  Aligned_cols=74  Identities=26%  Similarity=0.467  Sum_probs=68.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +|+|||-.||.+.++.||.+.|-.||.|...++        +|.|+||.|.++.+|+.||..|||..|+=++|+|++..+
T Consensus       285 GCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRP  364 (371)
T KOG0146|consen  285 GCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRP  364 (371)
T ss_pred             cceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCc
Confidence            799999999999999999999999999988776        489999999999999999999999999999999998776


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      +.
T Consensus       365 kd  366 (371)
T KOG0146|consen  365 KD  366 (371)
T ss_pred             cc
Confidence            53

>smart00360 RRM RNA recognition motif

Probab=99.20  E-value=9.5e-11  Score=73.36  Aligned_cols=65  Identities=31%  Similarity=0.544  Sum_probs=58.8

Q ss_pred             EcCCCCCCCHHHHHHHhhcCCceEEEecccC-----CCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        118 VENLSSRVSWQDLKDFMRQVGEVCYADAHKR-----HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       118 v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~-----~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      |+|||..+++++|.++|+.||.|..+.+...     ..++|||+|.+.++|..|+..+++..+.|..+.|
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v   70 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV   70 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence            5789999999999999999999998887643     3689999999999999999999999999998876

>KOG0149|consensus

Probab=99.19  E-value=5.3e-11  Score=88.51  Aligned_cols=74  Identities=20%  Similarity=0.297  Sum_probs=63.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      -..|||+||++++..++|+.+|++||+|..+.++     +.++||+||.|.+.+.|..|++- -.-.|+|++..++.+--
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcnlA~l   90 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCNLASL   90 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccchhhh
Confidence            3589999999999999999999999999988776     67899999999999999999963 34567888877766543

>KOG0153|consensus

Probab=99.18  E-value=7.3e-11  Score=92.40  Aligned_cols=72  Identities=29%  Similarity=0.478  Sum_probs=65.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHH-hcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYE-LNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~-l~~~~~~g~~l~v~~~~~   74 (262)
                      -+||||+||...++|.+|++.|.+||+|..|.+.  +++|||+|.+-+.|+.|.+. ++...|+|.+|.|.|..+
T Consensus       228 I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~  302 (377)
T KOG0153|consen  228 IKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP  302 (377)
T ss_pred             eeEEEecccccchhHHHHHHHHhhcCCeeeEEeecccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence            4799999999999999999999999999999984  78999999999999998866 555688999999999987

>KOG0112|consensus

Probab=99.18  E-value=2.7e-11  Score=105.41  Aligned_cols=150  Identities=18%  Similarity=0.309  Sum_probs=126.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      +.|||++||+..+++.+|+..|..+|.|..|.|.       .-||||.|.+...+-.|...+.+..|..-.+.+.+... 
T Consensus       372 trTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~~-  450 (975)
T KOG0112|consen  372 TRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQP-  450 (975)
T ss_pred             hhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCccccccccc-
Confidence            4699999999999999999999999999999984       35999999999999999989998877655555554432 


Q ss_pred             CcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEE
Q psy10320         76 DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVV  155 (262)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v  155 (262)
                                                       .......+++++|+.-+....+..+|..||.|..|++-.. .-|+||
T Consensus       451 ---------------------------------kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg-q~yayi  496 (975)
T KOG0112|consen  451 ---------------------------------KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG-QPYAYI  496 (975)
T ss_pred             ---------------------------------ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecccC-Ccceee
Confidence                                             1222457999999999999999999999999999887643 469999


Q ss_pred             EecCHHHHHHHHHHhCCcccCC--ceEEEeecCC
Q psy10320        156 EFESSSDMKKALDKLDNAELNG--RRIRLIEDKP  187 (262)
Q Consensus       156 ~f~~~~~a~~a~~~l~g~~~~g--~~~~v~~~~~  187 (262)
                      .|.+...++.|+..|-|..+++  +.+.|.++.+
T Consensus       497 ~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~  530 (975)
T KOG0112|consen  497 QYESPPAAQAATHDMRGAPLGGPPRRLRVDLASP  530 (975)
T ss_pred             ecccCccchhhHHHHhcCcCCCCCcccccccccC
Confidence            9999999999999999999987  5577766654

>KOG0415|consensus

Probab=99.16  E-value=3.8e-11  Score=94.17  Aligned_cols=76  Identities=21%  Similarity=0.307  Sum_probs=69.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .+.+.|||.-|.+-+++++|..+|+.||.|..+.++     +....||||+|++.+++++|.-+|++.-|+++.|+|.+.
T Consensus       237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFS  316 (479)
T KOG0415|consen  237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFS  316 (479)
T ss_pred             CCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehh
Confidence            446799999999999999999999999999999887     556789999999999999999999999999999999654


Q ss_pred             C
Q psy10320        186 K  186 (262)
Q Consensus       186 ~  186 (262)
                      .
T Consensus       317 Q  317 (479)
T KOG0415|consen  317 Q  317 (479)
T ss_pred             h
Confidence            3

>KOG0126|consensus

Probab=99.14  E-value=4.5e-12  Score=90.29  Aligned_cols=73  Identities=18%  Similarity=0.249  Sum_probs=67.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ..-|||+|||+++|+.||--+|++||+|..|.++     +.++||||+.|++.....-|+.-|||..+.|+.|+|...
T Consensus        35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv  112 (219)
T KOG0126|consen   35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV  112 (219)
T ss_pred             ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence            4489999999999999999999999999999887     678999999999999999999999999999999998543

>KOG0108|consensus

Probab=99.09  E-value=3.4e-10  Score=94.10  Aligned_cols=76  Identities=25%  Similarity=0.355  Sum_probs=70.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +.+||+|+|+++++++|.++|+..|.|..+.+.     +..+||+|++|.+.++|..|++.|||.++.|+.|+|.++...
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~   98 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR   98 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence            689999999999999999999999999998876     677999999999999999999999999999999999887654


Q ss_pred             C
Q psy10320        189 G  189 (262)
Q Consensus       189 ~  189 (262)
                      .
T Consensus        99 ~   99 (435)
T KOG0108|consen   99 K   99 (435)
T ss_pred             c
Confidence            3

>KOG4208|consensus

Probab=99.09  E-value=3.8e-10  Score=82.37  Aligned_cols=73  Identities=23%  Similarity=0.408  Sum_probs=66.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcC-CceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGY-GRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~-G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .+.+||..+|..+-+.+|..+|..| |.|..+.+        ++|||||+|++++.|.-|-+.||+..|.++.|.|.+..
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmp  128 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMP  128 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeC
Confidence            4678999999999999999999988 78888888        38999999999999999999999999999999998876


Q ss_pred             CC
Q psy10320         74 GI   75 (262)
Q Consensus        74 ~~   75 (262)
                      +.
T Consensus       129 pe  130 (214)
T KOG4208|consen  129 PE  130 (214)
T ss_pred             ch
Confidence            54

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

Probab=99.08  E-value=7.2e-10  Score=89.05  Aligned_cols=75  Identities=32%  Similarity=0.542  Sum_probs=69.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|.++|..||.|..+.+.     +..+|+|||+|.+.++|..|+..++|..+.|+.|.|.....
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~  194 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP  194 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence            5799999999999999999999999999777665     56789999999999999999999999999999999998654

>KOG4206|consensus

Probab=99.06  E-value=9.1e-10  Score=81.73  Aligned_cols=78  Identities=22%  Similarity=0.382  Sum_probs=70.9

Q ss_pred             CceEEEcCCCCCCCHHHHHH----HhhcCCceEEEecc--cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKD----FMRQVGEVCYADAH--KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~----~f~~~g~i~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..+|||.||+..+..++|..    +|++||.|..|...  ...+|.|||.|.+.+.|..|+..|+|..+.|+.+++.++.
T Consensus         9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~   88 (221)
T KOG4206|consen    9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAK   88 (221)
T ss_pred             CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheeccc
Confidence            44999999999999999887    99999999998876  4568999999999999999999999999999999999988


Q ss_pred             CCCC
Q psy10320        187 PRGG  190 (262)
Q Consensus       187 ~~~~  190 (262)
                      ....
T Consensus        89 s~sd   92 (221)
T KOG4206|consen   89 SDSD   92 (221)
T ss_pred             Cccc
Confidence            6653

>KOG0128|consensus

Probab=99.06  E-value=1.7e-11  Score=106.11  Aligned_cols=132  Identities=17%  Similarity=0.212  Sum_probs=111.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      +++||.||++.+.+.+|...|..+|.+..+.+        .+|+|||+|..++++.+||.....+.+. +          
T Consensus       668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g-K----------  736 (881)
T KOG0128|consen  668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG-K----------  736 (881)
T ss_pred             HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh-h----------
Confidence            57899999999999999999999987666554        3899999999999999999555554443 1          


Q ss_pred             CcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCc
Q psy10320         76 DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRN  151 (262)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~  151 (262)
                                                            ..++|.|+|+..|.++++.++..+|.+..+.++    +.++|
T Consensus       737 --------------------------------------~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg  778 (881)
T KOG0128|consen  737 --------------------------------------ISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKG  778 (881)
T ss_pred             --------------------------------------hhhheeCCCCCCchHHHHhhccccCCccccchhhhhcccccc
Confidence                                                  168899999999999999999999998887654    67899


Q ss_pred             eEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        152 EGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       152 ~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      .++|.|.+..++..++..+++..+....+.|..
T Consensus       779 ~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~v  811 (881)
T KOG0128|consen  779 KARVDYNTEADASRKVASVDVAGKRENNGEVQV  811 (881)
T ss_pred             ceeccCCCcchhhhhcccchhhhhhhcCccccc
Confidence            999999999999999988887777766666554

>KOG0533|consensus

Probab=99.04  E-value=9.6e-10  Score=84.19  Aligned_cols=75  Identities=35%  Similarity=0.558  Sum_probs=68.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      ++|+|.|||+.|+++||+++|..||.++.+.+.       .|.|-|.|...++|..||+.++|..++|..|.+.......
T Consensus        84 ~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~~  163 (243)
T KOG0533|consen   84 TKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSPS  163 (243)
T ss_pred             ceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCcc
Confidence            789999999999999999999999988888883       6999999999999999999999999999999998877654


Q ss_pred             cc
Q psy10320         77 RS   78 (262)
Q Consensus        77 ~~   78 (262)
                      ..
T Consensus       164 ~~  165 (243)
T KOG0533|consen  164 QS  165 (243)
T ss_pred             cc
Confidence            43

>KOG4210|consensus

Probab=99.02  E-value=5.9e-10  Score=88.48  Aligned_cols=166  Identities=20%  Similarity=0.266  Sum_probs=124.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .+++|++++..++.+.++..+|..+|.+....+        ++++++|.|+..+.+..|++........+..+...+...
T Consensus        88 ~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~  167 (285)
T KOG4210|consen   88 SSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTR  167 (285)
T ss_pred             cccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccccc
Confidence            478999999999999999999999997766655        389999999999999999944433455555554444332


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEE-EcCCCCCCCHHHHHHHhhcCCceEEEecc-----cC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLI-VENLSSRVSWQDLKDFMRQVGEVCYADAH-----KR  148 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~  148 (262)
                      .........                      ......+..+++ |.+++..++.++|...|..+|.|..+.+.     +.
T Consensus       168 ~~~~~~n~~----------------------~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~  225 (285)
T KOG4210|consen  168 RGLRPKNKL----------------------SRLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGD  225 (285)
T ss_pred             ccccccchh----------------------cccccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccc
Confidence            221000000                      000111123455 99999999999999999999999988876     45


Q ss_pred             CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCCC
Q psy10320        149 HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGG  191 (262)
Q Consensus       149 ~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~~  191 (262)
                      ..+++||+|.+...+..++.. ....+.+..+.+.+..+....
T Consensus       226 ~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  267 (285)
T KOG4210|consen  226 SKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPRPKS  267 (285)
T ss_pred             hhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCCccc
Confidence            688999999999999999976 788899999999988776544

>KOG0116|consensus

Probab=99.01  E-value=2.2e-09  Score=88.77  Aligned_cols=73  Identities=27%  Similarity=0.467  Sum_probs=63.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+++++++|+++|..||+|+...|.        .+||||+|.+.++++.|| ..+-..++++.|.|+.-..
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i-~Asp~~ig~~kl~Veek~~  366 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAI-EASPLEIGGRKLNVEEKRP  366 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhh-hcCccccCCeeEEEEeccc
Confidence            4569999999999999999999999999887762        289999999999999999 5558899999999987765


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus       367 ~~  368 (419)
T KOG0116|consen  367 GF  368 (419)
T ss_pred             cc
Confidence            43

>smart00361 RRM_1 RNA recognition motif

Probab=99.01  E-value=1.5e-09  Score=67.93  Aligned_cols=56  Identities=23%  Similarity=0.356  Sum_probs=48.0

Q ss_pred             HHHHHHHhh----cCCceEEEe-c-c------cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        127 WQDLKDFMR----QVGEVCYAD-A-H------KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       127 ~~~l~~~f~----~~g~i~~~~-~-~------~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      +++|.++|.    .||.|..+. + .      +..+|++||+|.+.++|..|+..|||..+.|+.|.+
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            467778887    999998874 2 2      345899999999999999999999999999999875

>KOG0106|consensus

Probab=99.00  E-value=2.5e-09  Score=80.10  Aligned_cols=71  Identities=30%  Similarity=0.485  Sum_probs=65.6

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .+||++||+.+.+.+|+.+|..||.+..+.+.   .+++||+|.+..+|..|+..|++..|.|-.+.|.+++..
T Consensus         3 rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk---~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~   73 (216)
T KOG0106|consen    3 RVYIGRLPYRARERDVERFFKGYGKIPDADMK---NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK   73 (216)
T ss_pred             ceeecccCCccchhHHHHHHhhccccccceee---cccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence            68999999999999999999999999999884   588899999999999999999999999998888887753

>KOG4661|consensus

Probab=98.98  E-value=1.1e-09  Score=91.20  Aligned_cols=73  Identities=26%  Similarity=0.496  Sum_probs=67.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +.+|||.+|...+-..+|+.||++||+|+..++.        +.|+||.+.+.++|.++|+.|+...++|+.|.|+.++.
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKN  484 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKN  484 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeeccc
Confidence            5689999999999999999999999999888772        68999999999999999999999999999999998875


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus       485 E  485 (940)
T KOG4661|consen  485 E  485 (940)
T ss_pred             C
Confidence            4

>KOG0151|consensus

Probab=98.96  E-value=2.7e-09  Score=91.03  Aligned_cols=74  Identities=27%  Similarity=0.421  Sum_probs=69.2

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEE
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVE   70 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~   70 (262)
                      +.|+|||+||++.++++.|...|..||+|..|+|+           ..|+||.|-+-.+|+.|+..|+|..+.+..+.+.
T Consensus       173 ~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~g  252 (877)
T KOG0151|consen  173 QTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLG  252 (877)
T ss_pred             cccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeec
Confidence            46899999999999999999999999999999994           6799999999999999999999999999999999


Q ss_pred             EccCC
Q psy10320         71 IAKGI   75 (262)
Q Consensus        71 ~~~~~   75 (262)
                      |++..
T Consensus       253 Wgk~V  257 (877)
T KOG0151|consen  253 WGKAV  257 (877)
T ss_pred             ccccc
Confidence            99654

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

Probab=98.96  E-value=6.4e-09  Score=68.25  Aligned_cols=71  Identities=23%  Similarity=0.271  Sum_probs=59.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcC--CceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccC----CceEEE
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGY--GRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLL----GERVTV   69 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~--G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~----g~~l~v   69 (262)
                      |||.|+|||...|.++|.+++...  |...-+.++        .|||||-|.+++.|......++|..|.    .+.+.|
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i   81 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI   81 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence            899999999999999999999753  555555552        799999999999999999999999775    466777


Q ss_pred             EEccC
Q psy10320         70 EIAKG   74 (262)
Q Consensus        70 ~~~~~   74 (262)
                      .+|.-
T Consensus        82 ~yAri   86 (97)
T PF04059_consen   82 SYARI   86 (97)
T ss_pred             ehhHh
Confidence            77764

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

>KOG4307|consensus

Probab=98.89  E-value=2.2e-08  Score=85.43  Aligned_cols=72  Identities=17%  Similarity=0.056  Sum_probs=60.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeE-EEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRD-VILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~-v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +..|||..||..+++.++.++|...-.|++ |.|.       .+.|||+|.+++++..|...-+...++.+.|.|.....
T Consensus       434 g~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si~~  513 (944)
T KOG4307|consen  434 GGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSIAD  513 (944)
T ss_pred             cceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEeechhh
Confidence            568999999999999999999998877877 6663       68999999999999999866666777778888876653

>KOG4307|consensus

Probab=98.88  E-value=1.2e-08  Score=87.02  Aligned_cols=178  Identities=14%  Similarity=0.011  Sum_probs=121.7

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcC-CceeEEEe-----e-CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGY-GRIRDVIL-----K-NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~-G~v~~v~i-----~-~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      +.+-+.+++.++.+.+++++|... -.-.++.+     . .|.++|+|..+.++++|+ .-|...+-.+.+.|.......
T Consensus       312 ~y~~~~gm~fn~~~nd~rkfF~g~~~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~-~rn~~~~~~R~~q~~P~g~~~  390 (944)
T KOG4307|consen  312 YYNNYKGMEFNNDFNDGRKFFPGRNAQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAF-TRNPSDDVNRPFQTGPPGNLG  390 (944)
T ss_pred             heeeecccccccccchhhhhcCcccccccchhhhhcCCCcCCceEEEecCcchHHHHH-hcCchhhhhcceeecCCCccc
Confidence            456677899999999999999754 22233332     2 799999999999999998 667778888888887776554


Q ss_pred             cccccCCCCCCC-----CCCCCCCCCCCCC--CCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEE-Eecc--
Q psy10320         77 RSQERGRRGYGS-----YRAPPPRRGWGHD--RDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCY-ADAH--  146 (262)
Q Consensus        77 ~~~~~~~~~~~~-----~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~-~~~~--  146 (262)
                      ............     ...+++.......  ..+...-|......|||..||..+++.++.++|.....|++ |.+.  
T Consensus       391 ~~~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~  470 (944)
T KOG4307|consen  391 RNGAPPFQAGVPPPVIQNNHGRPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRL  470 (944)
T ss_pred             cccCccccccCCCCcccccCCCCCCCcccccCCCCCCCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccC
Confidence            433322211111     0001111100000  00112234455779999999999999999999998887776 5554  


Q ss_pred             --cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        147 --KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       147 --~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                        ....+.|||+|.+++++..|...-+.+.++.+.|+|
T Consensus       471 P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv  508 (944)
T KOG4307|consen  471 PTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRV  508 (944)
T ss_pred             CcccccchhhheeccccccchhhhcccccccCceEEEe
Confidence              345779999999998888888766666677777877

>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=98.87  E-value=1.4e-08  Score=63.31  Aligned_cols=70  Identities=17%  Similarity=0.422  Sum_probs=49.9

Q ss_pred             ceEEEcCCCCCCCHHHH----HHHHhcCC-ceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDL----EKFVKGYG-RIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l----~~~F~~~G-~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      +.|||.|||.+.....|    ++++..|| .|..|  ..+.|+|.|.+++.|..|...|+|..+.|..|.|.+....
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~~   77 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPKN   77 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE----TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--S
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCCc
Confidence            57999999999888775    55667886 67666  6899999999999999999999999999999999988543

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

>KOG4205|consensus

Probab=98.80  E-value=8e-09  Score=82.41  Aligned_cols=74  Identities=30%  Similarity=0.604  Sum_probs=66.9

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      +|||++||.++++++|+++|++||.|.++.+        .++|+||.|.+++.+++++ .+.-..|.|+.+.|..+.++.
T Consensus        99 kiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~-~~~f~~~~gk~vevkrA~pk~  177 (311)
T KOG4205|consen   99 KIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVT-LQKFHDFNGKKVEVKRAIPKE  177 (311)
T ss_pred             EEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceec-ccceeeecCceeeEeeccchh
Confidence            8999999999999999999999999888877        3899999999999999998 777789999999999998775


Q ss_pred             ccc
Q psy10320         77 RSQ   79 (262)
Q Consensus        77 ~~~   79 (262)
                      ...
T Consensus       178 ~~~  180 (311)
T KOG4205|consen  178 VMQ  180 (311)
T ss_pred             hcc
Confidence            544

>KOG0132|consensus

Probab=98.75  E-value=3.1e-08  Score=85.57  Aligned_cols=78  Identities=23%  Similarity=0.323  Sum_probs=71.6

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGG  191 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~~  191 (262)
                      ..||||++|+..+++.||..+|+.||.|..|.++. ++++|||.+....+|.+|+.+|....+.++.|+|.++...+-.
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~-~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~k  498 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP-PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPK  498 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcccceeEeecc-CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcc
Confidence            46899999999999999999999999999999886 5799999999999999999999999999999999888765543

>KOG1365|consensus

Probab=98.71  E-value=5e-07  Score=72.20  Aligned_cols=162  Identities=20%  Similarity=0.248  Sum_probs=109.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCC----ceeEEEe----eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYG----RIRDVIL----KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G----~v~~v~i----~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .+.|-..+||+..++.+|..||+..-    -+.-|..    ..|.|.|.|.++|.-+.|+ .-+...+.++.|.|..+..
T Consensus        60 ~vvvRaRglpwq~Sd~~ia~ff~gl~ia~gg~aKOG~~qgrRnge~lvrf~d~e~Rdlal-kRhkhh~g~ryievYka~g  138 (508)
T KOG1365|consen   60 NVVVRARGLPWQSSDQDIARFFKGLNIANGGRALCLNAQGRRNGEALVRFVDPEGRDLAL-KRHKHHMGTRYIEVYKATG  138 (508)
T ss_pred             ceEEEecCCCCCcccCCHHHHHhhhhccccceeeeehhhhccccceEEEecCchhhhhhh-HhhhhhccCCceeeeccCc
Confidence            35677889999999999999998652    2222222    3689999999999999999 6677788889999876654


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcC-----C--ceEEEec-c
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQV-----G--EVCYADA-H  146 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~-----g--~i~~~~~-~  146 (262)
                      ...-.-.     ++.+..           ...-++......|.+.+||+++++.++.++|..-     |  .|..+.. .
T Consensus       139 e~f~~ia-----gg~s~e-----------~~~flsk~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpd  202 (508)
T KOG1365|consen  139 EEFLKIA-----GGTSNE-----------AAPFLSKENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPD  202 (508)
T ss_pred             hhheEec-----CCcccc-----------CCCCCCcccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCC
Confidence            3222110     000000           0000111112367789999999999999999632     2  3344444 3


Q ss_pred             cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        147 KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       147 ~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      +...|.|||.|+.+++|+.||. -|...++.+.|.+
T Consensus       203 grpTGdAFvlfa~ee~aq~aL~-khrq~iGqRYIEl  237 (508)
T KOG1365|consen  203 GRPTGDAFVLFACEEDAQFALR-KHRQNIGQRYIEL  237 (508)
T ss_pred             CCcccceEEEecCHHHHHHHHH-HHHHHHhHHHHHH
Confidence            6789999999999999999996 3555555555543

>KOG4209|consensus

Probab=98.66  E-value=3e-08  Score=76.29  Aligned_cols=72  Identities=25%  Similarity=0.510  Sum_probs=65.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .+.|||+|+.+.+|.+++...|+.||.|..+.|        .+|||||+|.+.+.++.|+. |++..|.|..+.|.+...
T Consensus       101 ~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~  179 (231)
T KOG4209|consen  101 APSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRT  179 (231)
T ss_pred             CceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeeee
Confidence            478999999999999999999999999987776        37899999999999999995 999999999999988875


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus       180 ~  180 (231)
T KOG4209|consen  180 N  180 (231)
T ss_pred             e
Confidence            4

>KOG0153|consensus

Probab=98.64  E-value=1.7e-07  Score=73.95  Aligned_cols=76  Identities=26%  Similarity=0.368  Sum_probs=65.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHh-CCcccCCceEEEeecCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL-DNAELNGRRIRLIEDKP  187 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l-~g~~~~g~~~~v~~~~~  187 (262)
                      ..-.+|||++|...+++.+|.+.|.+||+|..+.+... .+.|||+|.+...|+.|.+.+ +...++|.+|.|..+.+
T Consensus       226 ~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~-~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~  302 (377)
T KOG0153|consen  226 TSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR-KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP  302 (377)
T ss_pred             cceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc-cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence            34469999999999999999999999999999988753 469999999999999877665 45567999999998887

>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=98.64  E-value=1.1e-07  Score=63.95  Aligned_cols=70  Identities=24%  Similarity=0.414  Sum_probs=45.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCc--EEEEEeCChhhHHHHHHHhcCc-----ccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNG--FGFVEFEDYRDADDAVYELNGK-----SLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g--~afV~f~~~~~a~~a~~~l~~~-----~~~g~~l~v~~~   72 (262)
                      ++.|+|.|++..++-++|+++|+.||.|..|.+.+|  .|||-|.+++.|+.|++.+...     .+.+..+.+...
T Consensus         1 G~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vL   77 (105)
T PF08777_consen    1 GCILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVL   77 (105)
T ss_dssp             --EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE--
T ss_pred             CeEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEEC
Confidence            578999999999999999999999999999999865  7999999999999999776543     556666665543

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

>KOG0116|consensus

Probab=98.63  E-value=4.5e-07  Score=75.33  Aligned_cols=77  Identities=23%  Similarity=0.445  Sum_probs=65.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ..|||.|||.+++..+|+++|..||.|....|.     +....||||+|.+..+++.||.+ +-..++++++.|++.++.
T Consensus       289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~~~  367 (419)
T KOG0116|consen  289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKRPG  367 (419)
T ss_pred             cceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEecccc
Confidence            469999999999999999999999999876654     22238999999999999999975 477899999999988775


Q ss_pred             CCC
Q psy10320        189 GGG  191 (262)
Q Consensus       189 ~~~  191 (262)
                      ..+
T Consensus       368 ~~g  370 (419)
T KOG0116|consen  368 FRG  370 (419)
T ss_pred             ccc
Confidence            443

>KOG4661|consensus

Probab=98.62  E-value=1e-07  Score=79.83  Aligned_cols=74  Identities=31%  Similarity=0.428  Sum_probs=67.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ...|+|.+|...+...+|+.+|++||+|+-..++     ...+.|+||++.+..+|.+||..||..+|.|+.|.|..++
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK  483 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK  483 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence            3579999999999999999999999999988776     3357799999999999999999999999999999997665

>KOG0533|consensus

Probab=98.62  E-value=1.7e-07  Score=71.95  Aligned_cols=75  Identities=25%  Similarity=0.378  Sum_probs=65.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ...|+|.|||+.+.++||+++|..||.+..+.+.    +...|.|-|.|...++|..|++.++|..++|..+.+....+
T Consensus        83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~  161 (243)
T KOG0533|consen   83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISS  161 (243)
T ss_pred             cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecC
Confidence            3689999999999999999999999977766554    56778999999999999999999999999999988755443

>KOG4208|consensus

Probab=98.60  E-value=2.6e-07  Score=67.82  Aligned_cols=77  Identities=19%  Similarity=0.223  Sum_probs=65.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcC-CceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQV-GEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~-g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      .....+++..+|..+.+.++..+|.+| |.+..+.+.     |+++|||||+|++.+.|.-|-+.||+.-|.++.|.+..
T Consensus        47 ~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~v  126 (214)
T KOG4208|consen   47 EIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHV  126 (214)
T ss_pred             CCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEE
Confidence            334578999999999999999999988 666666663     78899999999999999999999999999999887654


Q ss_pred             cCC
Q psy10320        185 DKP  187 (262)
Q Consensus       185 ~~~  187 (262)
                      -.|
T Consensus       127 mpp  129 (214)
T KOG4208|consen  127 MPP  129 (214)
T ss_pred             eCc
Confidence            443

>KOG1457|consensus

Probab=98.60  E-value=1.3e-06  Score=64.85  Aligned_cols=81  Identities=14%  Similarity=0.176  Sum_probs=65.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc--cC----CCceEEEEecCHHHHHHHHHHhCCcccC---CceEE
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH--KR----HRNEGVVEFESSSDMKKALDKLDNAELN---GRRIR  181 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~--~~----~~~~~~v~f~~~~~a~~a~~~l~g~~~~---g~~~~  181 (262)
                      ....+|||.+||.++...+|..+|..|-..+...+.  .+    ++-+||+.|.+...|.+|+.+|||..|+   +..|+
T Consensus        32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLh  111 (284)
T KOG1457|consen   32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLH  111 (284)
T ss_pred             cccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeE
Confidence            346799999999999999999999998755544443  22    2468999999999999999999999886   67889


Q ss_pred             EeecCCCCCC
Q psy10320        182 LIEDKPRGGG  191 (262)
Q Consensus       182 v~~~~~~~~~  191 (262)
                      ++.++.....
T Consensus       112 iElAKSNtK~  121 (284)
T KOG1457|consen  112 IELAKSNTKR  121 (284)
T ss_pred             eeehhcCccc
Confidence            9888765433

>KOG4660|consensus

Probab=98.58  E-value=8.6e-08  Score=80.06  Aligned_cols=71  Identities=30%  Similarity=0.386  Sum_probs=66.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEE
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR  181 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~  181 (262)
                      .+..+|+|-|||..+++++|..+|+.||+|..+.......+.+||+|-|..+|+.|+++|++.++.|+.|.
T Consensus        73 ~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   73 MNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             CccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            34568999999999999999999999999999888888899999999999999999999999999999887

>KOG0226|consensus

Probab=98.49  E-value=1.9e-07  Score=70.56  Aligned_cols=139  Identities=16%  Similarity=0.193  Sum_probs=95.4

Q ss_pred             HHHHhcCCceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccccCCCCCCCCCCCC
Q psy10320         21 EKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPP   93 (262)
Q Consensus        21 ~~~F~~~G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~   93 (262)
                      ...|+.+-.+....+       ..+++|+.|.....-.++-..-++..+.-..|.+.-....+..               
T Consensus       117 ~~~f~~~p~L~ktk~v~~~p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a~gtswedP---------------  181 (290)
T KOG0226|consen  117 PVVFSEYPSLVKTKLVRDRPQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLAAGTSWEDP---------------  181 (290)
T ss_pred             hhhhccchhhhhhhhhhcCCCccCcccccCcchhhhhhhhccccccccccCcceeeccccccCCc---------------
Confidence            455655544333333       2689999998876666666555555555555443322211110               


Q ss_pred             CCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEec-----ccCCCceEEEEecCHHHHHHHHH
Q psy10320         94 PRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADA-----HKRHRNEGVVEFESSSDMKKALD  168 (262)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~-----~~~~~~~~~v~f~~~~~a~~a~~  168 (262)
                                 ....-......||-+.|..+++++-|...|.+|-......+     .++.+||+||.|.+..++..|+.
T Consensus       182 -----------sl~ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmr  250 (290)
T KOG0226|consen  182 -----------SLAEWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMR  250 (290)
T ss_pred             -----------ccccCccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHH
Confidence                       01111222458999999999999999999999875544444     47789999999999999999999


Q ss_pred             HhCCcccCCceEEEeec
Q psy10320        169 KLDNAELNGRRIRLIED  185 (262)
Q Consensus       169 ~l~g~~~~g~~~~v~~~  185 (262)
                      .|+|..++.+.|.+...
T Consensus       251 em~gkyVgsrpiklRkS  267 (290)
T KOG0226|consen  251 EMNGKYVGSRPIKLRKS  267 (290)
T ss_pred             hhcccccccchhHhhhh
Confidence            99999999999876443

>KOG4676|consensus

Probab=98.47  E-value=1.8e-08  Score=80.36  Aligned_cols=60  Identities=8%  Similarity=0.001  Sum_probs=52.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee----CcEEEEEeCChhhHHHHHHHhcCcccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK----NGFGFVEFEDYRDADDAVYELNGKSLL   63 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~----~g~afV~f~~~~~a~~a~~~l~~~~~~   63 (262)
                      +.||+|++|+..+-..++.++|..+|+|....+.    ..+|.|+|........|+ .++|..+.
T Consensus       151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~hal-r~~gre~k  214 (479)
T KOG4676|consen  151 RRTREVQSLISAAILPESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHAL-RSHGRERK  214 (479)
T ss_pred             HhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHH-Hhcchhhh
Confidence            4689999999999999999999999999887773    568889999999999999 67776665

>KOG4454|consensus

Probab=98.39  E-value=2e-07  Score=68.94  Aligned_cols=70  Identities=21%  Similarity=0.226  Sum_probs=62.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc---CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK---RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~---~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      ..+|||+|+...++++.|.++|-+.|+|..+.|..   ....+|||.|.++....-|+..+||..+.+..+.+
T Consensus         9 drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~   81 (267)
T KOG4454|consen    9 DRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQR   81 (267)
T ss_pred             hhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhc
Confidence            56999999999999999999999999999998872   22349999999999999999999999998887765

>KOG2202|consensus

Probab=98.36  E-value=1.1e-07  Score=72.00  Aligned_cols=61  Identities=25%  Similarity=0.365  Sum_probs=52.2

Q ss_pred             HHHHHHHh-cCCceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcc
Q psy10320         18 RDLEKFVK-GYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus        18 ~~l~~~F~-~~G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~   78 (262)
                      ++|...|+ +||+|+.+.|       ..|.+||.|..+++|++|++.||+.+|.|++|..+++......
T Consensus        83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~r  151 (260)
T KOG2202|consen   83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFR  151 (260)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchh
Confidence            45555556 8999999987       3799999999999999999999999999999999988765443

>KOG1548|consensus

Probab=98.35  E-value=2.6e-06  Score=67.35  Aligned_cols=77  Identities=16%  Similarity=0.321  Sum_probs=66.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEE--------Eecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCce
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCY--------ADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRR  179 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~--------~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~  179 (262)
                      .+..|||.|||.++|.+++.++|..+|.|..        |.++    +..+|-|.+.|-..+++.-|+..|++..+.|+.
T Consensus       133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~  212 (382)
T KOG1548|consen  133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKK  212 (382)
T ss_pred             cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcE
Confidence            3457999999999999999999999997643        3333    556889999999999999999999999999999


Q ss_pred             EEEeecCCC
Q psy10320        180 IRLIEDKPR  188 (262)
Q Consensus       180 ~~v~~~~~~  188 (262)
                      |+|..++-.
T Consensus       213 ~rVerAkfq  221 (382)
T KOG1548|consen  213 LRVERAKFQ  221 (382)
T ss_pred             EEEehhhhh
Confidence            999877644

>KOG0151|consensus

Probab=98.33  E-value=2.5e-06  Score=73.47  Aligned_cols=74  Identities=26%  Similarity=0.300  Sum_probs=66.4

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc--------cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH--------KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~--------~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ...|||+||++.++++.|...|..||+|..+.++        .....++||.|-+..+|+.|++.|+|..+.+..+++.+
T Consensus       174 TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gW  253 (877)
T KOG0151|consen  174 TTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGW  253 (877)
T ss_pred             ccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeecc
Confidence            5589999999999999999999999999999886        23467899999999999999999999999999888866


Q ss_pred             cC
Q psy10320        185 DK  186 (262)
Q Consensus       185 ~~  186 (262)
                      ++
T Consensus       254 gk  255 (877)
T KOG0151|consen  254 GK  255 (877)
T ss_pred             cc
Confidence            63

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

Probab=98.32  E-value=1.5e-06  Score=50.62  Aligned_cols=51  Identities=22%  Similarity=0.514  Sum_probs=44.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHH
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAV   54 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~   54 (262)
                      .++|-|.|.++...+..| ..|..||+|..+.+.  ...+||.|.+..+|+.||
T Consensus         1 ~~wI~V~Gf~~~~~~~vl-~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    1 STWISVSGFPPDLAEEVL-EHFASFGEIVDIYVPESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             CcEEEEEeECchHHHHHH-HHHHhcCCEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence            368999999988776554 588889999999997  789999999999999985

>KOG2416|consensus

Probab=98.25  E-value=2.4e-06  Score=72.13  Aligned_cols=77  Identities=9%  Similarity=0.144  Sum_probs=67.5

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHh-cCCceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCccc---CCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVK-GYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSL---LGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~-~~G~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~---~g~~l~v~~~~~~   75 (262)
                      +++.|||.||--..|.-+|++++. ..|.|.+.+|  .+..|||.|.+.++|...+++|||..|   +++.|.+.|....
T Consensus       443 ~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDkIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~~~d  522 (718)
T KOG2416|consen  443 PSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDKIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFVRAD  522 (718)
T ss_pred             ccceEeeecccccchHHHHHHHHhhccCchHHHHHHHhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeecchh
Confidence            357899999999999999999999 5778888877  589999999999999999999999977   6789999998765


Q ss_pred             Ccc
Q psy10320         76 DRS   78 (262)
Q Consensus        76 ~~~   78 (262)
                      ...
T Consensus       523 eld  525 (718)
T KOG2416|consen  523 ELD  525 (718)
T ss_pred             HHH
Confidence            444

>KOG0226|consensus

Probab=98.21  E-value=1.5e-06  Score=65.76  Aligned_cols=70  Identities=24%  Similarity=0.435  Sum_probs=60.1

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      -+||.|.|...++++.|-..|.+|-.-...++        ++||+||.|.++.++..|+.+|+|..++.+.|.+..+.
T Consensus       191 fRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~  268 (290)
T KOG0226|consen  191 FRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSE  268 (290)
T ss_pred             ceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhh
Confidence            47999999999999999999999864433333        48999999999999999999999999999988876443

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=98.19  E-value=4.1e-06  Score=66.03  Aligned_cols=71  Identities=20%  Similarity=0.497  Sum_probs=61.0

Q ss_pred             eEEEcCCCCCCCHHHH------HHHHhcCCceeEEEeeC---------cEE--EEEeCChhhHHHHHHHhcCcccCCceE
Q psy10320          5 KVYIGGLPYGVRERDL------EKFVKGYGRIRDVILKN---------GFG--FVEFEDYRDADDAVYELNGKSLLGERV   67 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l------~~~F~~~G~v~~v~i~~---------g~a--fV~f~~~~~a~~a~~~l~~~~~~g~~l   67 (262)
                      -|||-+||+.+..+++      .++|..||.|..|.+.+         +.+  ||.|.+.|+|..||.+.+|..++|+-|
T Consensus       116 LvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~l  195 (480)
T COG5175         116 LVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVL  195 (480)
T ss_pred             eeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceE
Confidence            4799999998888883      56899999999999942         223  999999999999999999999999999


Q ss_pred             EEEEccCC
Q psy10320         68 TVEIAKGI   75 (262)
Q Consensus        68 ~v~~~~~~   75 (262)
                      +..+...+
T Consensus       196 katYGTTK  203 (480)
T COG5175         196 KATYGTTK  203 (480)
T ss_pred             eeecCchH
Confidence            99887643

>KOG4209|consensus

Probab=98.18  E-value=5.5e-06  Score=63.88  Aligned_cols=75  Identities=19%  Similarity=0.247  Sum_probs=66.3

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ...+||+|+.+.++.++++..|+.||.|..+.+.     +..++++||+|.+.+.+..|+. |+|..+.|..+.|...+.
T Consensus       101 ~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~  179 (231)
T KOG4209|consen  101 APSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRT  179 (231)
T ss_pred             CceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeeee
Confidence            4489999999999999999999999998766554     4578999999999999999998 999999999999877665


Q ss_pred             C
Q psy10320        188 R  188 (262)
Q Consensus       188 ~  188 (262)
                      .
T Consensus       180 ~  180 (231)
T KOG4209|consen  180 N  180 (231)
T ss_pred             e
Confidence            4

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

Probab=98.17  E-value=2.2e-05  Score=51.72  Aligned_cols=75  Identities=9%  Similarity=0.151  Sum_probs=58.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcC--CceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccC----CceEEE
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQV--GEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELN----GRRIRL  182 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~--g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~----g~~~~v  182 (262)
                      .+|.|.|+|...+.++|.+++...  |....+.+.     ..+.|||||.|.+++.|..-.+.++|..+.    .+.+.|
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i   81 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI   81 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence            489999999999999999888753  333333333     456899999999999999999999999886    345666


Q ss_pred             eecCCC
Q psy10320        183 IEDKPR  188 (262)
Q Consensus       183 ~~~~~~  188 (262)
                      .+|+-+
T Consensus        82 ~yAriQ   87 (97)
T PF04059_consen   82 SYARIQ   87 (97)
T ss_pred             ehhHhh
Confidence            666543

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

>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=98.10  E-value=5.6e-06  Score=51.88  Aligned_cols=69  Identities=16%  Similarity=0.280  Sum_probs=47.5

Q ss_pred             ceEEEcCCCCCCCHHH----HHHHhhcCC-ceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        114 HRLIVENLSSRVSWQD----LKDFMRQVG-EVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~----l~~~f~~~g-~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..|+|.|||.+.....    |++++..+| .|..+.     .+-|+|.|.+++.|..|.+.|+|..+.|..|.|.+...
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~-----~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~   76 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS-----GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPK   76 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe-----CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCC
Confidence            3799999999988766    556666776 666552     47899999999999999999999999999999988743

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

>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=98.07  E-value=1.5e-05  Score=53.69  Aligned_cols=68  Identities=34%  Similarity=0.563  Sum_probs=43.1

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCc-----ccCCceEEE
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA-----ELNGRRIRL  182 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~-----~~~g~~~~v  182 (262)
                      +.|+|.+++..++.++|.+.|+.||.|.+|++... ...|||.|.+++.|+.|+..+.-.     .+.+..+.+
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G-~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~   74 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG-DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTL   74 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT--SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEE
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC-CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEE
Confidence            47899999999999999999999999999998753 358999999999999999877433     444544443

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

>KOG3152|consensus

Probab=98.05  E-value=2.8e-06  Score=64.44  Aligned_cols=63  Identities=27%  Similarity=0.420  Sum_probs=57.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------------------C--cEEEEEeCChhhHHHHHHHhcCcccC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------------------N--GFGFVEFEDYRDADDAVYELNGKSLL   63 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------------------~--g~afV~f~~~~~a~~a~~~l~~~~~~   63 (262)
                      ..||+.+||+.+...-|+++|+.||.|-.|.+.                  .  .-++|+|.+...|..+.+.|||..|+
T Consensus        75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Ig  154 (278)
T KOG3152|consen   75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIG  154 (278)
T ss_pred             eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccC
Confidence            579999999999999999999999999999982                  1  13789999999999999999999999


Q ss_pred             Cce
Q psy10320         64 GER   66 (262)
Q Consensus        64 g~~   66 (262)
                      |+.
T Consensus       155 gkk  157 (278)
T KOG3152|consen  155 GKK  157 (278)
T ss_pred             CCC
Confidence            875

>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=97.98  E-value=3.8e-05  Score=50.91  Aligned_cols=70  Identities=19%  Similarity=0.302  Sum_probs=53.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEE-------------e--eCcEEEEEeCChhhHHHHHHHhcCcccCCc-e
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVI-------------L--KNGFGFVEFEDYRDADDAVYELNGKSLLGE-R   66 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~-------------i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~-~   66 (262)
                      .+.|.|-+.|+. ....|.+.|+.||+|.+..             +  ......|.|.++.+|++|| ..||..|.|. .
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL-~~NG~i~~g~~m   83 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRAL-QKNGTIFSGSLM   83 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHH-TTTTEEETTCEE
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHH-HhCCeEEcCcEE
Confidence            467899999988 6668889999999998875             2  2578899999999999999 8899999886 4


Q ss_pred             EEEEEccC
Q psy10320         67 VTVEIAKG   74 (262)
Q Consensus        67 l~v~~~~~   74 (262)
                      +-|.++++
T Consensus        84 vGV~~~~~   91 (100)
T PF05172_consen   84 VGVKPCDP   91 (100)
T ss_dssp             EEEEE-HH
T ss_pred             EEEEEcHH
Confidence            55777743

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.

>KOG0128|consensus

Probab=97.93  E-value=6.7e-07  Score=78.40  Aligned_cols=158  Identities=17%  Similarity=0.141  Sum_probs=115.5

Q ss_pred             ccceEEEcCCCCCCCHH-HHHHHHhcCCceeEEEeeC--------cEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          2 VGTKVYIGGLPYGVRER-DLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~-~l~~~F~~~G~v~~v~i~~--------g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      ++...++.|+.+..... .+...|..+|.|+.|.+.+        .++++++....+++.|. ...+..+.++.+.|..+
T Consensus       570 ~~~e~~s~~v~p~~~~ke~~~~~~k~~~~vekv~~p~~g~k~h~q~~~~~~~s~~~~~esat-~pa~~~~a~~~~av~~a  648 (881)
T KOG0128|consen  570 ERREKESTNVYPEQQKKEIQRRQFKGEGNVEKVNGPKRGFKAHEQPQQQKVQSKHGSAESAT-VPAGGALANRSAAVGLA  648 (881)
T ss_pred             hhhhhcccCCCcchhhHHhhHHHhhcccccccccCccccccccccchhhhhhccccchhhcc-cccccccCCccccCCCC
Confidence            34456778887766666 5677889999999999953        27889999999999888 77777888888887777


Q ss_pred             cCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----c
Q psy10320         73 KGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----K  147 (262)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~  147 (262)
                      .+..........                      .......+++||.||+..+.+.+|...|..+|.+..+.+.     +
T Consensus       649 d~~~~~~~~kvs----------------------~n~~R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~  706 (881)
T KOG0128|consen  649 DAEEKEENFKVS----------------------PNEIRDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEK  706 (881)
T ss_pred             CchhhhhccCcC----------------------chHHHHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhcc
Confidence            654422110000                      0000123589999999999999999999999987766554     5


Q ss_pred             CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        148 RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       148 ~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      +-+|+||++|..++++.+|+....+..++...+-+
T Consensus       707 ~~rG~~Y~~F~~~~~~~aaV~f~d~~~~gK~~v~i  741 (881)
T KOG0128|consen  707 RFRGKAYVEFLKPEHAGAAVAFRDSCFFGKISVAI  741 (881)
T ss_pred             ccccceeeEeecCCchhhhhhhhhhhhhhhhhhhe
Confidence            66899999999999999999866665555444433

>KOG1995|consensus

Probab=97.93  E-value=8.1e-06  Score=65.07  Aligned_cols=73  Identities=26%  Similarity=0.402  Sum_probs=63.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeE--------EEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceE
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRD--------VIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERV   67 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~--------v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l   67 (262)
                      .||||-+||..+++++|.++|..+|.|..        |+|        .|+-|.|.|.++..|+.|+.-+++..|.+..|
T Consensus        67 ~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~i  146 (351)
T KOG1995|consen   67 ETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTI  146 (351)
T ss_pred             ccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCc
Confidence            58999999999999999999999998743        222        38999999999999999999999999999999


Q ss_pred             EEEEccCCC
Q psy10320         68 TVEIAKGID   76 (262)
Q Consensus        68 ~v~~~~~~~   76 (262)
                      +|.++....
T Consensus       147 kvs~a~~r~  155 (351)
T KOG1995|consen  147 KVSLAERRT  155 (351)
T ss_pred             hhhhhhhcc
Confidence            988776543

>KOG1855|consensus

Probab=97.86  E-value=1.3e-05  Score=65.23  Aligned_cols=60  Identities=22%  Similarity=0.307  Sum_probs=53.3

Q ss_pred             CccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---------------------CcEEEEEeCChhhHHHHHHHhcC
Q psy10320          1 MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---------------------NGFGFVEFEDYRDADDAVYELNG   59 (262)
Q Consensus         1 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---------------------~g~afV~f~~~~~a~~a~~~l~~   59 (262)
                      |.+.||.+.|||.+-..+.|.+||..||.|+.|.|-                     +-+|||+|...+.|.+|.+.|+.
T Consensus       229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~  308 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP  308 (484)
T ss_pred             cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence            356799999999999999999999999999999981                     35899999999999999988865


Q ss_pred             c
Q psy10320         60 K   60 (262)
Q Consensus        60 ~   60 (262)
                      .
T Consensus       309 e  309 (484)
T KOG1855|consen  309 E  309 (484)
T ss_pred             h
Confidence            3

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

Probab=97.85  E-value=0.00011  Score=51.80  Aligned_cols=57  Identities=21%  Similarity=0.248  Sum_probs=48.1

Q ss_pred             HHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320         19 DLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus        19 ~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      +|.+.|..||+|.=|++..+.-+|.|.+-+.|.+|+ .|+|..+.|+.|.|.+-.+..
T Consensus        52 ~ll~~~~~~GevvLvRfv~~~mwVTF~dg~sALaal-s~dg~~v~g~~l~i~LKtpdW  108 (146)
T PF08952_consen   52 ELLQKFAQYGEVVLVRFVGDTMWVTFRDGQSALAAL-SLDGIQVNGRTLKIRLKTPDW  108 (146)
T ss_dssp             HHHHHHHCCS-ECEEEEETTCEEEEESSCHHHHHHH-HGCCSEETTEEEEEEE-----
T ss_pred             HHHHHHHhCCceEEEEEeCCeEEEEECccHHHHHHH-ccCCcEECCEEEEEEeCCccH
Confidence            677889999999989998999999999999999999 999999999999999877653

; PDB: 1UFW_A 2DNR_A.

>KOG0112|consensus

Probab=97.83  E-value=8.8e-05  Score=65.94  Aligned_cols=80  Identities=21%  Similarity=0.356  Sum_probs=70.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCC--ceEEEEEccCCCc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLG--ERVTVEIAKGIDR   77 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~~~~~~   77 (262)
                      +.|.++|++|.+++....|...|..||.|..|.+-  .-||||.|++...|+.|++.|-|..|++  +.|.|.++.....
T Consensus       454 ~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~~~  533 (975)
T KOG0112|consen  454 PTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPPGA  533 (975)
T ss_pred             cceeeccCCCCCCChHHHHHHHhhccCcceeeecccCCcceeeecccCccchhhHHHHhcCcCCCCCcccccccccCCCC
Confidence            46889999999999999999999999999999985  4599999999999999999999999976  6788888886654


Q ss_pred             cccc
Q psy10320         78 SQER   81 (262)
Q Consensus        78 ~~~~   81 (262)
                      ....
T Consensus       534 ~Pqq  537 (975)
T KOG0112|consen  534 TPQQ  537 (975)
T ss_pred             Chhh
Confidence            4433

>KOG4210|consensus

Probab=97.68  E-value=4.7e-05  Score=60.81  Aligned_cols=73  Identities=23%  Similarity=0.444  Sum_probs=64.6

Q ss_pred             eEE-EcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          5 KVY-IGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         5 ~l~-V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ++| |+||+.++++++|...|..+|.|..+.+.        +|+|||.|.....+..++.. +...+.+..+.+....+.
T Consensus       186 ~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  264 (285)
T KOG4210|consen  186 TIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPR  264 (285)
T ss_pred             cceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCC
Confidence            555 99999999999999999999999999983        79999999999999999966 788999999999988765


Q ss_pred             Ccc
Q psy10320         76 DRS   78 (262)
Q Consensus        76 ~~~   78 (262)
                      ...
T Consensus       265 ~~~  267 (285)
T KOG4210|consen  265 PKS  267 (285)
T ss_pred             ccc
Confidence            443

>KOG4849|consensus

Probab=97.66  E-value=4e-05  Score=60.86  Aligned_cols=69  Identities=20%  Similarity=0.316  Sum_probs=58.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCc--eeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGR--IRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~--v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      -+|||||.+.+|++||.+.+...|.  +.++++        ++|||+|...+...+++.|+.|....|+|+.-.|-...
T Consensus        82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~N  160 (498)
T KOG4849|consen   82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSYN  160 (498)
T ss_pred             EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeeccc
Confidence            5899999999999999999987773  455554        48999999999999999999999999999877665544

>KOG1996|consensus

Probab=97.65  E-value=0.00013  Score=56.65  Aligned_cols=57  Identities=32%  Similarity=0.412  Sum_probs=48.8

Q ss_pred             HHHHHHHHhcCCceeEEEee---------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320         17 ERDLEKFVKGYGRIRDVILK---------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus        17 ~~~l~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      ++++.+.+++||.|..|.|.         ---.||+|..+++|.+|+-.|||.+|+|+.+...|-.
T Consensus       300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn  365 (378)
T KOG1996|consen  300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN  365 (378)
T ss_pred             HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence            45678889999999998883         2357999999999999999999999999998877654

>KOG2202|consensus

Probab=97.64  E-value=0.00028  Score=54.01  Aligned_cols=58  Identities=26%  Similarity=0.305  Sum_probs=46.3

Q ss_pred             HHHHHHhh-cCCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        128 QDLKDFMR-QVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       128 ~~l~~~f~-~~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      +++...|+ +||+|..+.+-.    .-.|.+||.|...++|++|++.||+.++.|++|.....
T Consensus        83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~  145 (260)
T KOG2202|consen   83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS  145 (260)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence            34444555 899998876542    23678999999999999999999999999999977544

>KOG2314|consensus

Probab=97.64  E-value=8.1e-05  Score=62.86  Aligned_cols=71  Identities=34%  Similarity=0.476  Sum_probs=55.5

Q ss_pred             cceEEEcCCCCC--CCH----HHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccC-CceEE
Q psy10320          3 GTKVYIGGLPYG--VRE----RDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLL-GERVT   68 (262)
Q Consensus         3 ~~~l~V~nl~~~--~t~----~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~-g~~l~   68 (262)
                      .+.|+|.|+|.-  .-.    ..|..+|+++|+|..+.++       +||+|++|++..+|+.|+..|||..|+ ...+.
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~  137 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFF  137 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEE
Confidence            367899999842  222    2356689999999998884       899999999999999999999998775 45666


Q ss_pred             EEEcc
Q psy10320         69 VEIAK   73 (262)
Q Consensus        69 v~~~~   73 (262)
                      |..-+
T Consensus       138 v~~f~  142 (698)
T KOG2314|consen  138 VRLFK  142 (698)
T ss_pred             eehhh
Confidence            65544

>KOG0115|consensus

Probab=97.62  E-value=0.00021  Score=54.52  Aligned_cols=85  Identities=28%  Similarity=0.315  Sum_probs=72.1

Q ss_pred             hhHHHHHHHhcCcccCCceEEEEEccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCH
Q psy10320         48 RDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSW  127 (262)
Q Consensus        48 ~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~  127 (262)
                      .-|..|..+|++....|+.|.|.|+..                                       ..|+|.||...++.
T Consensus         5 t~ae~ak~eLd~~~~~~~~lr~rfa~~---------------------------------------a~l~V~nl~~~~sn   45 (275)
T KOG0115|consen    5 TLAEIAKRELDGRFPKGRSLRVRFAMH---------------------------------------AELYVVNLMQGASN   45 (275)
T ss_pred             cHHHHHHHhcCCCCCCCCceEEEeecc---------------------------------------ceEEEEecchhhhh
Confidence            346777778999999999999999863                                       38999999999999


Q ss_pred             HHHHHHhhcCCceEEEe----cccCCCceEEEEecCHHHHHHHHHHhC
Q psy10320        128 QDLKDFMRQVGEVCYAD----AHKRHRNEGVVEFESSSDMKKALDKLD  171 (262)
Q Consensus       128 ~~l~~~f~~~g~i~~~~----~~~~~~~~~~v~f~~~~~a~~a~~~l~  171 (262)
                      +.+.+.|..||+|....    ..+...+.++|+|+..-.+.+|+....
T Consensus        46 dll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~   93 (275)
T KOG0115|consen   46 DLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCR   93 (275)
T ss_pred             HHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhc
Confidence            99999999999875443    336778899999999999999988763

>KOG0129|consensus

Probab=97.61  E-value=0.0002  Score=59.94  Aligned_cols=53  Identities=25%  Similarity=0.431  Sum_probs=48.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHh-cCCceeEEEe--------eCcEEEEEeCChhhHHHHHHH
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVK-GYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE   56 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~-~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~   56 (262)
                      -|||||+||-.+|.++|..+|+ -||.|..+-|        ++|-|=|.|.+..+-.+||+.
T Consensus       371 rTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  371 RTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             ceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence            5999999999999999999999 7999988877        489999999999999999954

>KOG1995|consensus

Probab=97.60  E-value=0.00019  Score=57.47  Aligned_cols=77  Identities=18%  Similarity=0.262  Sum_probs=64.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEE--------ecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA--------DAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNG  177 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~--------~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g  177 (262)
                      ....+|||.+||..+++.+|.++|.+++.|..-        ++.     ...++.|.|.|.++..|+.|+..++++.+.+
T Consensus        64 s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~g  143 (351)
T KOG1995|consen   64 SDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCG  143 (351)
T ss_pred             cccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccC
Confidence            335689999999999999999999999976321        221     4568899999999999999999999999999


Q ss_pred             ceEEEeecCC
Q psy10320        178 RRIRLIEDKP  187 (262)
Q Consensus       178 ~~~~v~~~~~  187 (262)
                      ..|+|..+..
T Consensus       144 n~ikvs~a~~  153 (351)
T KOG1995|consen  144 NTIKVSLAER  153 (351)
T ss_pred             CCchhhhhhh
Confidence            9998866553

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

Probab=97.52  E-value=0.00081  Score=42.32  Aligned_cols=53  Identities=15%  Similarity=0.267  Sum_probs=43.8

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELN   58 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~   58 (262)
                      ..||+ +|......||.++|..||.|.--.|...-|||...+.+.|..|+..+.
T Consensus        11 VFhlt-FPkeWK~~DI~qlFspfG~I~VsWi~dTSAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen   11 VFHLT-FPKEWKTSDIYQLFSPFGQIYVSWINDTSAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             EEEEE---TT--HHHHHHHCCCCCCEEEEEECTTEEEEEECCCHHHHHHHHHHT
T ss_pred             EEEEe-CchHhhhhhHHHHhccCCcEEEEEEcCCcEEEEeecHHHHHHHHHHhc
Confidence            45565 999999999999999999998888889999999999999999987765

; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.

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

Probab=97.51  E-value=0.00038  Score=40.49  Aligned_cols=51  Identities=18%  Similarity=0.242  Sum_probs=41.6

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHH
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKAL  167 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~  167 (262)
                      .|-|.|.+....+. +...|..||+|..+.+. ......+|.|.+..+|+.|+
T Consensus         3 wI~V~Gf~~~~~~~-vl~~F~~fGeI~~~~~~-~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    3 WISVSGFPPDLAEE-VLEHFASFGEIVDIYVP-ESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             EEEEEeECchHHHH-HHHHHHhcCCEEEEEcC-CCCcEEEEEECCHHHHHhhC
Confidence            57788888777754 55588889999998886 34678999999999999985

>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=97.47  E-value=0.0013  Score=41.27  Aligned_cols=67  Identities=28%  Similarity=0.471  Sum_probs=43.0

Q ss_pred             ceEEEcCC--CCCCCHHHHHHHHhcCC-----ceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          4 TKVYIGGL--PYGVRERDLEKFVKGYG-----RIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         4 ~~l~V~nl--~~~~t~~~l~~~F~~~G-----~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      |++|| |+  -..++..+|..++...+     .|-.|.|...|+||+-.. +.|..++..|++..+.|+.|.|+.+
T Consensus         1 vrl~i-n~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~A   74 (74)
T PF03880_consen    1 VRLFI-NVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFDNFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA   74 (74)
T ss_dssp             -EEEE-S-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS-EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred             CEEEE-EcccccCCCHHHHHHHHHhccCCCHHhEEEEEEeeeEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence            45566 33  34788999999998653     577899999999999987 5899999999999999999999864

; PDB: 2G0C_A 3MOJ_B.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.45  E-value=0.00043  Score=54.94  Aligned_cols=74  Identities=14%  Similarity=0.303  Sum_probs=60.4

Q ss_pred             CceEEEcCCCCCCCHHH------HHHHhhcCCceEEEecccCC------Cc--eEEEEecCHHHHHHHHHHhCCcccCCc
Q psy10320        113 DHRLIVENLSSRVSWQD------LKDFMRQVGEVCYADAHKRH------RN--EGVVEFESSSDMKKALDKLDNAELNGR  178 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~------l~~~f~~~g~i~~~~~~~~~------~~--~~~v~f~~~~~a~~a~~~l~g~~~~g~  178 (262)
                      .+.+||-+|++.+..++      -.++|.+||.|..+.+....      .+  -.||.|.+.++|..||.+.+|..++|+
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr  193 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGR  193 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCc
Confidence            45789999998887766      35899999999988776321      12  249999999999999999999999999


Q ss_pred             eEEEeecC
Q psy10320        179 RIRLIEDK  186 (262)
Q Consensus       179 ~~~v~~~~  186 (262)
                      .|+..+..
T Consensus       194 ~lkatYGT  201 (480)
T COG5175         194 VLKATYGT  201 (480)
T ss_pred             eEeeecCc
Confidence            99886654

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=97.36  E-value=0.0015  Score=38.95  Aligned_cols=54  Identities=24%  Similarity=0.324  Sum_probs=43.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcC----CceeEEEeeCcEEEEEeCChhhHHHHHHHh
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGY----GRIRDVILKNGFGFVEFEDYRDADDAVYEL   57 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~----G~v~~v~i~~g~afV~f~~~~~a~~a~~~l   57 (262)
                      ..+|+|.|+. +++.++|+.+|..|    ++..--.|--.-|=|.|.+.+.|.+||..|
T Consensus         5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDtScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDTSCNVVFKDEETAARALVAL   62 (62)
T ss_pred             eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCCcEEEEECCHHHHHHHHHcC
Confidence            4689999985 68889999999998    544333445678999999999999999654

>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=97.34  E-value=0.0014  Score=43.47  Aligned_cols=70  Identities=9%  Similarity=0.069  Sum_probs=50.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEe------------cccCCCceEEEEecCHHHHHHHHHHhCCcccCCce-E
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYAD------------AHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRR-I  180 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~------------~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~-~  180 (262)
                      .-|.|-+.|... ...|.+.|++||.|....            -......+..|.|+++.+|.+||. .||..+.|.. +
T Consensus         7 ~wVtVFGfp~~~-~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~mv   84 (100)
T PF05172_consen    7 TWVTVFGFPPSA-SNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLMV   84 (100)
T ss_dssp             CEEEEE---GGG-HHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEEE
T ss_pred             eEEEEEccCHHH-HHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEEE
Confidence            467888888884 467889999999998775            223346788999999999999996 7999998854 4


Q ss_pred             EEeec
Q psy10320        181 RLIED  185 (262)
Q Consensus       181 ~v~~~  185 (262)
                      -|.+.
T Consensus        85 GV~~~   89 (100)
T PF05172_consen   85 GVKPC   89 (100)
T ss_dssp             EEEE-
T ss_pred             EEEEc
Confidence            45544

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.

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=97.33  E-value=0.0013  Score=45.76  Aligned_cols=70  Identities=17%  Similarity=0.155  Sum_probs=54.3

Q ss_pred             cceEEEcCCCC----CCCHHHHHHHHhcCCceeEEEee-CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPY----GVRERDLEKFVKGYGRIRDVILK-NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~----~~t~~~l~~~F~~~G~v~~v~i~-~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      |.||.|.=|..    .-+...|.+.++.||+|..|.+. +..|.|.|.+..+|-.|+.+++. ...|..+.+.|-.
T Consensus        86 MsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsWqq  160 (166)
T PF15023_consen   86 MSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSWQQ  160 (166)
T ss_pred             ceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCCceEEEEehhhHHHHHHHHhhcC-CCCCceEEeeccc
Confidence            56888865544    33444566677899999999985 78899999999999999987776 5667777777654

>KOG3152|consensus

Probab=97.30  E-value=0.00021  Score=54.49  Aligned_cols=66  Identities=24%  Similarity=0.353  Sum_probs=56.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccC-------------CC----ceEEEEecCHHHHHHHHHHhCCcccC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR-------------HR----NEGVVEFESSSDMKKALDKLDNAELN  176 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~-------------~~----~~~~v~f~~~~~a~~a~~~l~g~~~~  176 (262)
                      -.||++++|+.+...-|+++|..||.|-.|.+...             +.    ..+.|+|.....|..+.+.||+..|+
T Consensus        75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Ig  154 (278)
T KOG3152|consen   75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIG  154 (278)
T ss_pred             eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccC
Confidence            48999999999999999999999999998887521             11    24679999999999999999999999


Q ss_pred             Cce
Q psy10320        177 GRR  179 (262)
Q Consensus       177 g~~  179 (262)
                      |+.
T Consensus       155 gkk  157 (278)
T KOG3152|consen  155 GKK  157 (278)
T ss_pred             CCC
Confidence            864

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

Probab=97.16  E-value=0.00037  Score=51.68  Aligned_cols=71  Identities=20%  Similarity=0.250  Sum_probs=48.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhc-CCce---eEEE--e--------eCcEEEEEeCChhhHHHHHHHhcCcccCCc---
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKG-YGRI---RDVI--L--------KNGFGFVEFEDYRDADDAVYELNGKSLLGE---   65 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~-~G~v---~~v~--i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~---   65 (262)
                      .++|.|++|||++|++++.+.+.. ++..   ..+.  .        .-.-|||.|.+.+++...+..++|..|.+.   
T Consensus         7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~   86 (176)
T PF03467_consen    7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKGN   86 (176)
T ss_dssp             --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-
T ss_pred             CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCCC
Confidence            579999999999999999997776 6654   3333  1        135799999999999999999999866432   


Q ss_pred             --eEEEEEcc
Q psy10320         66 --RVTVEIAK   73 (262)
Q Consensus        66 --~l~v~~~~   73 (262)
                        ...|+++-
T Consensus        87 ~~~~~VE~Ap   96 (176)
T PF03467_consen   87 EYPAVVEFAP   96 (176)
T ss_dssp             EEEEEEEE-S
T ss_pred             CcceeEEEcc
Confidence              34455554

Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.

>KOG2314|consensus

Probab=97.11  E-value=0.0014  Score=55.77  Aligned_cols=70  Identities=19%  Similarity=0.220  Sum_probs=56.6

Q ss_pred             CceEEEcCCCCCCCH------HHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCC-ceEE
Q psy10320        113 DHRLIVENLSSRVSW------QDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNG-RRIR  181 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~------~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g-~~~~  181 (262)
                      ...|+|.|+|.--..      .-|..+|+++|++....+.    +..+|+.|++|++..+|+.|++.|||+.++- ....
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~  137 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFF  137 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEE
Confidence            458899999854332      3477899999999888776    5678999999999999999999999998864 3444


Q ss_pred             E
Q psy10320        182 L  182 (262)
Q Consensus       182 v  182 (262)
                      |
T Consensus       138 v  138 (698)
T KOG2314|consen  138 V  138 (698)
T ss_pred             e
Confidence            4

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

Probab=96.95  E-value=0.0059  Score=43.14  Aligned_cols=55  Identities=27%  Similarity=0.382  Sum_probs=45.0

Q ss_pred             HHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        129 DLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       129 ~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      +|-+.|..||.+.-+.+.+   +.-+|.|.+...|.+|+. ++|.+++|+.|.|....|
T Consensus        52 ~ll~~~~~~GevvLvRfv~---~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtp  106 (146)
T PF08952_consen   52 ELLQKFAQYGEVVLVRFVG---DTMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTP  106 (146)
T ss_dssp             HHHHHHHCCS-ECEEEEET---TCEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE---
T ss_pred             HHHHHHHhCCceEEEEEeC---CeEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCc
Confidence            6778888999998887765   468999999999999996 999999999999876543

; PDB: 1UFW_A 2DNR_A.

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

Probab=96.93  E-value=0.0088  Score=37.77  Aligned_cols=53  Identities=9%  Similarity=0.201  Sum_probs=40.9

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhC
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLD  171 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~  171 (262)
                      ..+|+ +|.++...||.++|..||.|.-..+.   -.-|||...+.+.|..|+..+.
T Consensus        11 VFhlt-FPkeWK~~DI~qlFspfG~I~VsWi~---dTSAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen   11 VFHLT-FPKEWKTSDIYQLFSPFGQIYVSWIN---DTSAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             EEEEE---TT--HHHHHHHCCCCCCEEEEEEC---TTEEEEEECCCHHHHHHHHHHT
T ss_pred             EEEEe-CchHhhhhhHHHHhccCCcEEEEEEc---CCcEEEEeecHHHHHHHHHHhc
Confidence            45554 99999999999999999988766663   3679999999999999998775

; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.

>KOG2416|consensus

Probab=96.85  E-value=0.0018  Score=55.35  Aligned_cols=76  Identities=16%  Similarity=0.213  Sum_probs=60.4

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcC-CceEEEecccCCCceEEEEecCHHHHHHHHHHhCCccc---CCceEEEeec
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQV-GEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL---NGRRIRLIED  185 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~-g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~---~g~~~~v~~~  185 (262)
                      ....+.|||.||-.-.|.-+|++++..- |.|... ++..-+..|||.|.+.++|.....+|||..+   +.+.|.+.|+
T Consensus       441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~-WmDkIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~  519 (718)
T KOG2416|consen  441 KEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF-WMDKIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV  519 (718)
T ss_pred             CCccceEeeecccccchHHHHHHHHhhccCchHHH-HHHHhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence            4457899999999999999999999954 455555 4444567899999999999999999999876   3466766544


Q ss_pred             C
Q psy10320        186 K  186 (262)
Q Consensus       186 ~  186 (262)
                      .
T Consensus       520 ~  520 (718)
T KOG2416|consen  520 R  520 (718)
T ss_pred             c
Confidence            3

>KOG1855|consensus

Probab=96.75  E-value=0.0018  Score=53.14  Aligned_cols=63  Identities=22%  Similarity=0.347  Sum_probs=53.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccC------------------CCceEEEEecCHHHHHHHHHHhCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR------------------HRNEGVVEFESSSDMKKALDKLDN  172 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~------------------~~~~~~v~f~~~~~a~~a~~~l~g  172 (262)
                      .+..+|.+.|||.+-.-+.|.++|..+|.|..|.|..-                  .+..|+|+|++.+.|.+|.+.|+.
T Consensus       229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~  308 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP  308 (484)
T ss_pred             cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence            34679999999999999999999999999999987621                  244689999999999999998864


Q ss_pred             c
Q psy10320        173 A  173 (262)
Q Consensus       173 ~  173 (262)
                      .
T Consensus       309 e  309 (484)
T KOG1855|consen  309 E  309 (484)
T ss_pred             h
Confidence            4

>KOG1996|consensus

Probab=96.65  E-value=0.0053  Score=48.06  Aligned_cols=58  Identities=21%  Similarity=0.146  Sum_probs=47.3

Q ss_pred             HHHHHHHhhcCCceEEEecccCC------CceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        127 WQDLKDFMRQVGEVCYADAHKRH------RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       127 ~~~l~~~f~~~g~i~~~~~~~~~------~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ++++.+.+++||.|..|.|...+      .--.||+|...++|.+|+-.|||..|+|+.+...+
T Consensus       300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~F  363 (378)
T KOG1996|consen  300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACF  363 (378)
T ss_pred             HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeehee
Confidence            35688999999999888776321      22469999999999999999999999999887543

>KOG0115|consensus

Probab=96.65  E-value=0.013  Score=45.16  Aligned_cols=70  Identities=24%  Similarity=0.316  Sum_probs=55.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCc----ccCCceEEEEEc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGK----SLLGERVTVEIA   72 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~----~~~g~~l~v~~~   72 (262)
                      .-|||.||+..++-+.|.+.|..||+|....+       ..+-++|+|...-.|.+|+..+.-.    +..+...-|.+.
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP~  111 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEPM  111 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCChh
Confidence            57999999999999999999999999876444       3678999999999999999887433    344555556554


Q ss_pred             c
Q psy10320         73 K   73 (262)
Q Consensus        73 ~   73 (262)
                      .
T Consensus       112 e  112 (275)
T KOG0115|consen  112 E  112 (275)
T ss_pred             h
Confidence            4

>KOG2068|consensus

Probab=96.48  E-value=0.001  Score=53.06  Aligned_cols=71  Identities=20%  Similarity=0.443  Sum_probs=57.6

Q ss_pred             eEEEcCCCCCCCHHHHHH---HHhcCCceeEEEeeC-----------cEEEEEeCChhhHHHHHHHhcCcccCCceEEEE
Q psy10320          5 KVYIGGLPYGVRERDLEK---FVKGYGRIRDVILKN-----------GFGFVEFEDYRDADDAVYELNGKSLLGERVTVE   70 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~---~F~~~G~v~~v~i~~-----------g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~   70 (262)
                      -+||-+|++.+..+.+.+   .|..||.|..|.+.+           .-+||.|...++|..||...+|..++|+.|+..
T Consensus        79 lvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka~  158 (327)
T KOG2068|consen   79 LVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKAS  158 (327)
T ss_pred             hhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHHh
Confidence            467788888777666654   788899999998842           248999999999999999999999999987776


Q ss_pred             EccCC
Q psy10320         71 IAKGI   75 (262)
Q Consensus        71 ~~~~~   75 (262)
                      +...+
T Consensus       159 ~gttk  163 (327)
T KOG2068|consen  159 LGTTK  163 (327)
T ss_pred             hCCCc
Confidence            66544

>KOG2591|consensus

Probab=96.39  E-value=0.0076  Score=51.31  Aligned_cols=65  Identities=20%  Similarity=0.280  Sum_probs=54.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhc--CCceeEEEe-eCcEEEEEeCChhhHHHHHHHhcC--cccCCceEE
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKG--YGRIRDVIL-KNGFGFVEFEDYRDADDAVYELNG--KSLLGERVT   68 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~--~G~v~~v~i-~~g~afV~f~~~~~a~~a~~~l~~--~~~~g~~l~   68 (262)
                      |.|+|.-||..+-+|+|+.||..  |-++.+|.+ ....=||.|++..||+.|...|..  ..|.|+.|.
T Consensus       176 cIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~nWyITfesd~DAQqAykylreevk~fqgKpIm  245 (684)
T KOG2591|consen  176 CIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDNWYITFESDTDAQQAYKYLREEVKTFQGKPIM  245 (684)
T ss_pred             eEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCceEEEeecchhHHHHHHHHHHHHHhhcCcchh
Confidence            67899999999999999999974  778889888 366679999999999999877665  367777654

>KOG4285|consensus

Probab=96.36  E-value=0.018  Score=45.37  Aligned_cols=74  Identities=16%  Similarity=0.218  Sum_probs=58.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCc-eEEEEEccCCCcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGE-RVTVEIAKGIDRS   78 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~-~l~v~~~~~~~~~   78 (262)
                      .+.|-|-++|+..+ .-|..+|+.||+|.+....  -.+-+|-|....+|++|| ..||+.|+|. .|-|..+.++...
T Consensus       197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~~ngNwMhirYssr~~A~KAL-skng~ii~g~vmiGVkpCtDksvi  273 (350)
T KOG4285|consen  197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTPSNGNWMHIRYSSRTHAQKAL-SKNGTIIDGDVMIGVKPCTDKSVI  273 (350)
T ss_pred             cceEEEeccCccch-hHHHHHHHhhCeeeeeecCCCCceEEEEecchhHHHHhh-hhcCeeeccceEEeeeecCCHHHh
Confidence            35778888887654 3577889999999988874  457899999999999999 8899999886 4457777665433

>KOG0835|consensus

Probab=96.32  E-value=0.011  Score=47.07  Aligned_cols=12  Identities=0%  Similarity=0.174  Sum_probs=6.6

Q ss_pred             CCCHHHHHHHhh
Q psy10320        124 RVSWQDLKDFMR  135 (262)
Q Consensus       124 ~~~~~~l~~~f~  135 (262)
                      .+++.+|.+++-
T Consensus       212 d~~k~eid~ic~  223 (367)
T KOG0835|consen  212 DTTKREIDEICY  223 (367)
T ss_pred             CCcHHHHHHHHH
Confidence            455666665543

>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=96.26  E-value=0.016  Score=43.28  Aligned_cols=62  Identities=23%  Similarity=0.163  Sum_probs=45.5

Q ss_pred             CCHHHHHHHHhcCCceeEEEeeC--cEEEEEeCChhhHHHHHHHhc--CcccCCceEEEEEccCCC
Q psy10320         15 VRERDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAVYELN--GKSLLGERVTVEIAKGID   76 (262)
Q Consensus        15 ~t~~~l~~~F~~~G~v~~v~i~~--g~afV~f~~~~~a~~a~~~l~--~~~~~g~~l~v~~~~~~~   76 (262)
                      -..+.|+++|..|+.+..+..-+  +-..|.|.+.++|..|...|+  +..|.|..|.|.++....
T Consensus         7 ~~~~~l~~l~~~~~~~~~~~~L~sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~   72 (184)
T PF04847_consen    7 DNLAELEELFSTYDPPVQFSPLKSFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTP   72 (184)
T ss_dssp             --HHHHHHHHHTT-SS-EEEEETTTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS
T ss_pred             hhHHHHHHHHHhcCCceEEEEcCCCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccccc
Confidence            34578999999999888877754  458999999999999999999  899999999999986443

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.

>KOG4849|consensus

Probab=96.13  E-value=0.0064  Score=48.75  Aligned_cols=70  Identities=14%  Similarity=0.170  Sum_probs=58.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCc--eEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGE--VCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~--i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      ...+||+||-+-+|++||.+.+...|-  +..+++.     ++.+|||.|........++.++.|-.+++.|..-.|
T Consensus        80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V  156 (498)
T KOG4849|consen   80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTV  156 (498)
T ss_pred             eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCee
Confidence            458999999999999999999988873  3344433     678999999999999999999999999999876555

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=96.10  E-value=0.044  Score=37.14  Aligned_cols=60  Identities=22%  Similarity=0.257  Sum_probs=43.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCC-ceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCC
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYG-RIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLG   64 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G-~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g   64 (262)
                      .+.+...|+.++.++|..+.+.+- .|..++|.      +=.++++|.+.++|......+||..|.-
T Consensus        15 ~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns   81 (110)
T PF07576_consen   15 LCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNS   81 (110)
T ss_pred             EEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence            344444555666666766666664 46667773      2368999999999999999999987754

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>KOG2253|consensus

Probab=95.96  E-value=0.0039  Score=54.09  Aligned_cols=68  Identities=18%  Similarity=0.257  Sum_probs=62.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      -+|||+||...+..+-+..++..+|.|..+...+ |+|.+|..+..+..|+..++...++|+.+.+...
T Consensus        41 ~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~-fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d  108 (668)
T KOG2253|consen   41 DTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK-FGFCEFLKHIGDLRASRLLTELNIDDQKLIENVD  108 (668)
T ss_pred             ceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh-hcccchhhHHHHHHHHHHhcccCCCcchhhccch
Confidence            5899999999999999999999999998887765 9999999999999999999999999998887654

>KOG2193|consensus

Probab=95.89  E-value=0.0077  Score=49.59  Aligned_cols=73  Identities=22%  Similarity=0.287  Sum_probs=57.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCc-ccCCceEEEeecCCC
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA-ELNGRRIRLIEDKPR  188 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~-~~~g~~~~v~~~~~~  188 (262)
                      .+|++||.+.++..+++.+|...-.-..-.++ -..||+||.+.+...|.+|++.++|+ ++.|..+.+...-++
T Consensus         3 klyignL~p~~~psdl~svfg~ak~~~~g~fl-~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~k   76 (584)
T KOG2193|consen    3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQFL-VKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPK   76 (584)
T ss_pred             cccccccCCCCChHHHHHHhccccCCCCccee-eecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhH
Confidence            68999999999999999999754211111111 14689999999999999999999987 688999988766654

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=95.81  E-value=0.07  Score=31.93  Aligned_cols=53  Identities=17%  Similarity=0.248  Sum_probs=40.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcC----CceEEEecccCCCceEEEEecCHHHHHHHHHHh
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQV----GEVCYADAHKRHRNEGVVEFESSSDMKKALDKL  170 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~----g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l  170 (262)
                      ..|+|.|+. +++.++|+.+|..|    + ...+.++.+  .-|.|.|.+.+.|.+||.+|
T Consensus         6 eavhirGvd-~lsT~dI~~y~~~y~~~~~-~~~IEWIdD--tScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEG-PFRIEWIDD--TSCNVVFKDEETAARALVAL   62 (62)
T ss_pred             ceEEEEcCC-CCCHHHHHHHHHHhcccCC-CceEEEecC--CcEEEEECCHHHHHHHHHcC
Confidence            479999986 47778999999988    4 334444433  45899999999999999764

>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=95.75  E-value=0.082  Score=32.13  Aligned_cols=55  Identities=18%  Similarity=0.293  Sum_probs=46.4

Q ss_pred             CCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEE
Q psy10320         14 GVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTV   69 (262)
Q Consensus        14 ~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v   69 (262)
                      .++-++|+..+..|+ -..|...+.--||.|.+..+|+++....+|..+.+..|.+
T Consensus        11 ~~~v~d~K~~Lr~y~-~~~I~~d~tGfYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M   65 (66)
T PF11767_consen   11 GVTVEDFKKRLRKYR-WDRIRDDRTGFYIVFNDSKEAERCFRAEDGTLFFTYRMQM   65 (66)
T ss_pred             CccHHHHHHHHhcCC-cceEEecCCEEEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence            688899999999996 4566665555699999999999999999999888877765

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

>KOG2591|consensus

Probab=95.66  E-value=0.043  Score=46.95  Aligned_cols=66  Identities=17%  Similarity=0.301  Sum_probs=51.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhc--CCceEEEecccCCCceEEEEecCHHHHHHHHHHhCC--cccCCceE
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQ--VGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDN--AELNGRRI  180 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~--~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g--~~~~g~~~  180 (262)
                      .|.|.+..||..+..++++.+|..  +-+++.+.+..+  .-.||.|++..||+.|...|..  ++|.|+.|
T Consensus       175 RcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N--~nWyITfesd~DAQqAykylreevk~fqgKpI  244 (684)
T KOG2591|consen  175 RCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHN--DNWYITFESDTDAQQAYKYLREEVKTFQGKPI  244 (684)
T ss_pred             eeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeec--CceEEEeecchhHHHHHHHHHHHHHhhcCcch
Confidence            568889999999999999999975  567777776532  4589999999999999977642  34555544

>KOG2135|consensus

Probab=95.53  E-value=0.009  Score=49.91  Aligned_cols=71  Identities=17%  Similarity=0.258  Sum_probs=57.7

Q ss_pred             eEEEcCCCCC-CCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          5 KVYIGGLPYG-VRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         5 ~l~V~nl~~~-~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .|-+.-+|+. -|-++|..-|..||+|..|.+.  .-.|.|.|.+.-+|-.|. ..++..|+++.|+|.|.++..
T Consensus       374 ~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~~~a~vTF~t~aeag~a~-~s~~avlnnr~iKl~whnps~  447 (526)
T KOG2135|consen  374 PLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSSLHAVVTFKTRAEAGEAY-ASHGAVLNNRFIKLFWHNPSP  447 (526)
T ss_pred             hhhhhccCCCCchHhhhhhhhhhcCccccccccCchhhheeeeeccccccchh-ccccceecCceeEEEEecCCc
Confidence            3344444443 3567889999999999999984  568999999999998888 788999999999999998643

>KOG0804|consensus

Probab=94.80  E-value=0.081  Score=44.23  Aligned_cols=62  Identities=27%  Similarity=0.386  Sum_probs=53.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCC-ceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYG-RIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLG   64 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G-~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g   64 (262)
                      ++.|.|-.+|..+|..||..|...|- .|.+|.+.      +=.++|.|.+.++|....+.+||..|..
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~  142 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNS  142 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence            57899999999999999999998764 57788873      2358999999999999999999998864

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=94.75  E-value=0.49  Score=32.12  Aligned_cols=64  Identities=8%  Similarity=0.026  Sum_probs=46.7

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCC-ceEEEecccCC---CceEEEEecCHHHHHHHHHHhCCcccCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAHKRH---RNEGVVEFESSSDMKKALDKLDNAELNG  177 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g-~i~~~~~~~~~---~~~~~v~f~~~~~a~~a~~~l~g~~~~g  177 (262)
                      ..+.+..+|..++.++|..+.+.+- .|..+.+....   +-.+.+.|.+..+|..-...+||+.++.
T Consensus        14 ~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns   81 (110)
T PF07576_consen   14 TLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNS   81 (110)
T ss_pred             eEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence            3455566666777777776666554 45566666433   3467899999999999999999998864

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>KOG2135|consensus

Probab=94.26  E-value=0.08  Score=44.49  Aligned_cols=70  Identities=26%  Similarity=0.331  Sum_probs=53.8

Q ss_pred             EEEcCCCCCC-CHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        116 LIVENLSSRV-SWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       116 l~v~nl~~~~-~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      |-+.-.|..+ +-.+|...|.+||.|..+.+--. ...|.|+|.+..+|-.|.. .++..|+++.|+|..-.+
T Consensus       375 l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~-~~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnp  445 (526)
T KOG2135|consen  375 LALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS-SLHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNP  445 (526)
T ss_pred             hhhhccCCCCchHhhhhhhhhhcCccccccccCc-hhhheeeeeccccccchhc-cccceecCceeEEEEecC
Confidence            3344444443 45789999999999998877532 5678999999999977774 799999999999866554

>KOG2253|consensus

Probab=93.85  E-value=0.18  Score=44.36  Aligned_cols=71  Identities=20%  Similarity=0.129  Sum_probs=61.0

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ..+..++||+|+-..+..+-+..++..+|-|..+....    |+|++|..+.-+..|+..++-..++|..+.++.
T Consensus        37 ~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~----fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~  107 (668)
T KOG2253|consen   37 LPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK----FGFCEFLKHIGDLRASRLLTELNIDDQKLIENV  107 (668)
T ss_pred             CCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh----hcccchhhHHHHHHHHHHhcccCCCcchhhccc
Confidence            34466999999999999999999999999888777653    999999999999999998988888888776543

>PF14111 DUF4283: Domain of unknown function (DUF4283)

Probab=93.85  E-value=0.063  Score=38.85  Aligned_cols=107  Identities=15%  Similarity=0.058  Sum_probs=72.6

Q ss_pred             CCCHHHHHHHHhc----CCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccccCCCCCCCC
Q psy10320         14 GVRERDLEKFVKG----YGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSY   89 (262)
Q Consensus        14 ~~t~~~l~~~F~~----~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~   89 (262)
                      .++...|.+.+..    .|.+.-..+..++..+.|.+++++..++ ......|.|..|.++...+.......        
T Consensus        28 ~~~~~~l~~~l~~~W~~~~~~~i~~l~~~~fl~~F~~~~d~~~vl-~~~p~~~~~~~~~l~~W~~~~~~~~~--------   98 (153)
T PF14111_consen   28 PISLSALEQELAKIWKLKGGVKIRDLGDNLFLFQFESEEDRQRVL-KGGPWNFNGHFLILQRWSPDFNPSEV--------   98 (153)
T ss_pred             CCCHHHHHHHHHHHhCCCCcEEEEEeCCCeEEEEEEeccceeEEE-ecccccccccchhhhhhccccccccc--------
Confidence            4566777776654    3556666667999999999999999998 44555777877777766532211100        


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCC-CCHHHHHHHhhcCCceEEEeccc
Q psy10320         90 RAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSR-VSWQDLKDFMRQVGEVCYADAHK  147 (262)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~-~~~~~l~~~f~~~g~i~~~~~~~  147 (262)
                                        .......=|.|.|||.. .+++-+..+.+.+|.+..++...
T Consensus        99 ------------------~~~~~~vWVri~glP~~~~~~~~~~~i~~~iG~~i~vD~~t  139 (153)
T PF14111_consen   99 ------------------KFEHIPVWVRIYGLPLHLWSEEILKAIGSKIGEPIEVDENT  139 (153)
T ss_pred             ------------------ceeccchhhhhccCCHHHhhhHHHHHHHHhcCCeEEEEcCC
Confidence                              00011223667899987 56677889999999999998763

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

Probab=93.12  E-value=0.087  Score=39.18  Aligned_cols=65  Identities=9%  Similarity=0.249  Sum_probs=44.0

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhc-CCce---EEEe--cc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQ-VGEV---CYAD--AH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNG  177 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~-~g~i---~~~~--~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g  177 (262)
                      ...|.|.+||+.++++++.+.+.. ++..   ..+.  ..     .....-|||.|.+.+++..-...++|..|.+
T Consensus         7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D   82 (176)
T PF03467_consen    7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVD   82 (176)
T ss_dssp             --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-
T ss_pred             CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEEC
Confidence            458999999999999999987776 5544   2222  11     1123468999999999999999999976643

Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.

>KOG4285|consensus

Probab=92.96  E-value=0.45  Score=37.85  Aligned_cols=70  Identities=16%  Similarity=0.180  Sum_probs=53.1

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCce-EEEeecCCC
Q psy10320        116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRR-IRLIEDKPR  188 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~-~~v~~~~~~  188 (262)
                      |.|-++|.... ..|..+|++||.|...... .+..+-+|.|...-+|++||. .+|+.|+|.. |-|+.+..+
T Consensus       200 VTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~-~ngNwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpCtDk  270 (350)
T KOG4285|consen  200 VTVFGFPPGQV-SIVLNLFSRCGEVVKHVTP-SNGNWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPCTDK  270 (350)
T ss_pred             EEEeccCccch-hHHHHHHHhhCeeeeeecC-CCCceEEEEecchhHHHHhhh-hcCeeeccceEEeeeecCCH
Confidence            45556665544 4678899999999877665 566789999999999999997 6899998865 456655433

>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi)

Probab=92.95  E-value=0.18  Score=32.62  Aligned_cols=70  Identities=14%  Similarity=0.158  Sum_probs=44.4

Q ss_pred             EEEEeCChhhHHHHHHHhcC--cccCCceEEEEEccCC--CcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCce
Q psy10320         40 GFVEFEDYRDADDAVYELNG--KSLLGERVTVEIAKGI--DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHR  115 (262)
Q Consensus        40 afV~f~~~~~a~~a~~~l~~--~~~~g~~l~v~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (262)
                      |+|.|.++.-|+..+ .+..  ..+++..+.|......  ........                         ......+
T Consensus         1 AlITF~e~~VA~~i~-~~~~~~v~l~~~~~~V~v~P~~~~~~~k~qv~-------------------------~~vs~rt   54 (88)
T PF07292_consen    1 ALITFEEEGVAQRIL-KKKKHPVPLEDCCVRVKVSPVTLGHLQKFQVF-------------------------SGVSKRT   54 (88)
T ss_pred             CEEEeCcHHHHHHHH-hCCEEEEEECCEEEEEEEEeEecCCceEEEEE-------------------------EcccCCE
Confidence            789999999999988 3333  3556666655544321  11111100                         0112458


Q ss_pred             EEEcCCCCCCCHHHHHHHhh
Q psy10320        116 LIVENLSSRVSWQDLKDFMR  135 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~  135 (262)
                      |.|.|+|..+.+++|++.++
T Consensus        55 Vlvsgip~~l~ee~l~D~Le   74 (88)
T PF07292_consen   55 VLVSGIPDVLDEEELRDKLE   74 (88)
T ss_pred             EEEeCCCCCCChhhheeeEE
Confidence            99999999999998888754

This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].

>KOG4574|consensus

Probab=92.91  E-value=0.072  Score=47.97  Aligned_cols=72  Identities=21%  Similarity=0.289  Sum_probs=60.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeC--cEEEEEeCChhhHHHHHHHhcCccc--CCceEEEEEccCCC
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAVYELNGKSL--LGERVTVEIAKGID   76 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~--g~afV~f~~~~~a~~a~~~l~~~~~--~g~~l~v~~~~~~~   76 (262)
                      +.++.|.+-+.|-.-|..+|..||.|.+++.-+  ..|.|+|...+.|..|+.+|+|..+  -|-+..|.+++...
T Consensus       300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~  375 (1007)
T KOG4574|consen  300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLP  375 (1007)
T ss_pred             hhhhhcccccchHHHHHHHHHhhcchhhheecccccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccccc
Confidence            445666777888999999999999999998854  5799999999999999999999744  67788888887543

>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=92.63  E-value=0.46  Score=35.54  Aligned_cols=62  Identities=21%  Similarity=0.306  Sum_probs=44.6

Q ss_pred             CHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhC--CcccCCceEEEeecCCC
Q psy10320        126 SWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLD--NAELNGRRIRLIEDKPR  188 (262)
Q Consensus       126 ~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~--g~~~~g~~~~v~~~~~~  188 (262)
                      ....|+++|..++.+..+..+. +-+-..|.|.+.+.|..|...|+  +..+.|..+++.++...
T Consensus         8 ~~~~l~~l~~~~~~~~~~~~L~-sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~   71 (184)
T PF04847_consen    8 NLAELEELFSTYDPPVQFSPLK-SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT   71 (184)
T ss_dssp             -HHHHHHHHHTT-SS-EEEEET-TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred             hHHHHHHHHHhcCCceEEEEcC-CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence            4578999999999877766653 23557899999999999999999  89999999999887543

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.

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=92.24  E-value=0.35  Score=34.04  Aligned_cols=64  Identities=16%  Similarity=0.251  Sum_probs=46.8

Q ss_pred             ceEEEc----CCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceE
Q psy10320        114 HRLIVE----NLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRI  180 (262)
Q Consensus       114 ~~l~v~----nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~  180 (262)
                      .+|.|.    |+...-....+...++.||+|..+.+.|  +.-|.|.|.+...|-.|+.+++. ...|..+
T Consensus        87 sTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG--rqsavVvF~d~~SAC~Av~Af~s-~~pgtm~  154 (166)
T PF15023_consen   87 STIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG--RQSAVVVFKDITSACKAVSAFQS-RAPGTMF  154 (166)
T ss_pred             eeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC--CceEEEEehhhHHHHHHHHhhcC-CCCCceE
Confidence            356664    4444444456777788999999999875  46799999999999999998775 3334433

>KOG2068|consensus

Probab=92.20  E-value=0.066  Score=43.08  Aligned_cols=74  Identities=15%  Similarity=0.242  Sum_probs=55.9

Q ss_pred             CceEEEcCCCCCCCHHHHH---HHhhcCCceEEEecccCC--------CceEEEEecCHHHHHHHHHHhCCcccCCceEE
Q psy10320        113 DHRLIVENLSSRVSWQDLK---DFMRQVGEVCYADAHKRH--------RNEGVVEFESSSDMKKALDKLDNAELNGRRIR  181 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~---~~f~~~g~i~~~~~~~~~--------~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~  181 (262)
                      .+.+||-+|+..+.++.+.   +.|.+||.|..+.+....        ..-++|.|...++|..||...+|..++|+.++
T Consensus        77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lk  156 (327)
T KOG2068|consen   77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALK  156 (327)
T ss_pred             hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhH
Confidence            3568888888877666654   567788888887765322        22479999999999999999999999998865


Q ss_pred             EeecC
Q psy10320        182 LIEDK  186 (262)
Q Consensus       182 v~~~~  186 (262)
                      ..++.
T Consensus       157 a~~gt  161 (327)
T KOG2068|consen  157 ASLGT  161 (327)
T ss_pred             HhhCC
Confidence            54433

>KOG2318|consensus

Probab=91.84  E-value=1  Score=39.22  Aligned_cols=71  Identities=15%  Similarity=0.275  Sum_probs=56.9

Q ss_pred             cceEEEcCCCC-CCCHHHHHHHHhcC----CceeEEEee----------------C------------------------
Q psy10320          3 GTKVYIGGLPY-GVRERDLEKFVKGY----GRIRDVILK----------------N------------------------   37 (262)
Q Consensus         3 ~~~l~V~nl~~-~~t~~~l~~~F~~~----G~v~~v~i~----------------~------------------------   37 (262)
                      +.+|-|-||.+ .+...+|.-+|..|    |.|..|.|-                .                        
T Consensus       174 T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~~~  253 (650)
T KOG2318|consen  174 TKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEEDV  253 (650)
T ss_pred             cceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhhhH
Confidence            45788999997 68999999999877    588888870                0                        


Q ss_pred             ---------------cEEEEEeCChhhHHHHHHHhcCcccCCce--EEEEEcc
Q psy10320         38 ---------------GFGFVEFEDYRDADDAVYELNGKSLLGER--VTVEIAK   73 (262)
Q Consensus        38 ---------------g~afV~f~~~~~a~~a~~~l~~~~~~g~~--l~v~~~~   73 (262)
                                     =||.|+|.+++.|...++.|+|..|....  |.+.|..
T Consensus       254 ~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRFIP  306 (650)
T KOG2318|consen  254 DREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRFIP  306 (650)
T ss_pred             HHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeeecC
Confidence                           17999999999999999999999887554  4444443

>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=88.93  E-value=3.5  Score=25.63  Aligned_cols=60  Identities=17%  Similarity=0.290  Sum_probs=34.9

Q ss_pred             CCCCCHHHHHHHhhcCC-----ceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        122 SSRVSWQDLKDFMRQVG-----EVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       122 ~~~~~~~~l~~~f~~~g-----~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      -..++..+|-.++...+     .|-.+.+.   ..++||+.... .|..++..|++..+.|+.+.|+.+
T Consensus        10 ~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~---~~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A   74 (74)
T PF03880_consen   10 KDGLTPRDIVGAICNEAGIPGRDIGRIDIF---DNFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA   74 (74)
T ss_dssp             GGT--HHHHHHHHHTCTTB-GGGEEEEEE----SS-EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred             ccCCCHHHHHHHHHhccCCCHHhEEEEEEe---eeEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence            34567778888877654     45566664   46788887654 788889999999999999998764

; PDB: 2G0C_A 3MOJ_B.

>KOG4410|consensus

Probab=88.74  E-value=4.2  Score=32.27  Aligned_cols=46  Identities=22%  Similarity=0.217  Sum_probs=36.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceE-EEecccCCCceEEEEecCH
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVC-YADAHKRHRNEGVVEFESS  160 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~-~~~~~~~~~~~~~v~f~~~  160 (262)
                      .-|+++||+.++...||+..+.+.+.+. .+.+ ..+.+-||++|.+.
T Consensus       331 ~di~~~nl~rd~rv~dlk~~lr~~~~~pm~isw-kg~~~k~flh~~~~  377 (396)
T KOG4410|consen  331 TDIKLTNLSRDIRVKDLKSELRKRECTPMSISW-KGHFGKCFLHFGNR  377 (396)
T ss_pred             cceeeccCccccchHHHHHHHHhcCCCceeEee-ecCCcceeEecCCc
Confidence            4699999999999999999999887543 3333 34678899999764

>KOG0804|consensus

Probab=87.27  E-value=1.9  Score=36.47  Aligned_cols=65  Identities=12%  Similarity=0.232  Sum_probs=53.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCC-ceEEEecccC---CCceEEEEecCHHHHHHHHHHhCCcccCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAHKR---HRNEGVVEFESSSDMKKALDKLDNAELNG  177 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g-~i~~~~~~~~---~~~~~~v~f~~~~~a~~a~~~l~g~~~~g  177 (262)
                      ...|+|-.+|..++..||..|+..+- .|.++.++.+   ++-.+.|.|.+.++|......+||..|+.
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~  142 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNS  142 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence            56899999999999999999998665 4566766643   23457799999999999999999998875

>KOG2295|consensus

Probab=85.98  E-value=0.19  Score=43.26  Aligned_cols=63  Identities=17%  Similarity=0.257  Sum_probs=52.5

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLG   64 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g   64 (262)
                      +.|+|+|.|++++++-.+|..++..+--+..+.+.        ....+|.|.---....|+.+||+..+..
T Consensus       230 ke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s  300 (648)
T KOG2295|consen  230 KECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRS  300 (648)
T ss_pred             HHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhccccc
Confidence            35789999999999999999999998767777764        4578999998888888888888875543

>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]

Probab=85.22  E-value=6.2  Score=24.33  Aligned_cols=47  Identities=21%  Similarity=0.351  Sum_probs=38.9

Q ss_pred             CccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--eCcEEEEEeCCh
Q psy10320          1 MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDY   47 (262)
Q Consensus         1 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~   47 (262)
                      |+..+|+|.|+.=.-=...+.+.+.....|..+.+  ..+.++|.|.+.
T Consensus         1 ~~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~   49 (71)
T COG2608           1 MMKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSN   49 (71)
T ss_pred             CceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCC
Confidence            78899999999777777889999998876777666  577899999983

>KOG4365|consensus

Probab=85.21  E-value=0.15  Score=42.57  Aligned_cols=74  Identities=5%  Similarity=-0.107  Sum_probs=60.5

Q ss_pred             CccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          1 MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         1 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      |.+++.++..||..++++++.-+|+.||.|.-+.++        .-.+||...+ .+|..+|..+-...++|..+.+.++
T Consensus         1 mgs~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q~~~~~~~r~~~~   79 (572)
T KOG4365|consen    1 MGSMKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQTTFESQDRKAVS   79 (572)
T ss_pred             CcchhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHHhhhhhhhhhhhcC
Confidence            677889999999999999999999999999877774        3467777665 5778888888888888888887776


Q ss_pred             cCC
Q psy10320         73 KGI   75 (262)
Q Consensus        73 ~~~   75 (262)
                      ...
T Consensus        80 ~~s   82 (572)
T KOG4365|consen   80 PSS   82 (572)
T ss_pred             chh
Confidence            543

>KOG2891|consensus

Probab=84.74  E-value=0.53  Score=36.94  Aligned_cols=32  Identities=28%  Similarity=0.521  Sum_probs=26.7

Q ss_pred             ceEEEcCCCC------------CCCHHHHHHHHhcCCceeEEEe
Q psy10320          4 TKVYIGGLPY------------GVRERDLEKFVKGYGRIRDVIL   35 (262)
Q Consensus         4 ~~l~V~nl~~------------~~t~~~l~~~F~~~G~v~~v~i   35 (262)
                      -|||+.+||-            --+++-|...|+.||.|..|.|
T Consensus       150 dti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdi  193 (445)
T KOG2891|consen  150 DTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDI  193 (445)
T ss_pred             CceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCC
Confidence            4888888874            2467889999999999988887

>KOG4574|consensus

Probab=84.32  E-value=0.82  Score=41.64  Aligned_cols=71  Identities=25%  Similarity=0.257  Sum_probs=57.0

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCccc--CCceEEEeecCC
Q psy10320        116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL--NGRRIRLIEDKP  187 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~--~g~~~~v~~~~~  187 (262)
                      .++.|.+-..+-..|..+|..||.|..++.+. .-..|.|+|...+.|..|+++|+|.++  .|.+.+|.+++.
T Consensus       301 ~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr-~~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~  373 (1007)
T KOG4574|consen  301 QSLENNAVNLTSSSLATLCSDYGSVASAWTLR-DLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKT  373 (1007)
T ss_pred             hhhhcccccchHHHHHHHHHhhcchhhheecc-cccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccc
Confidence            34445566677778999999999999887753 246799999999999999999999875  577788877764

>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT

Probab=83.58  E-value=1.5  Score=30.10  Aligned_cols=51  Identities=20%  Similarity=0.282  Sum_probs=27.0

Q ss_pred             ceEEEcCCCCC---------CCHHHHHHHHhcCCceeEEEe-----eCcEEEEEeCChh-hHHHHH
Q psy10320          4 TKVYIGGLPYG---------VRERDLEKFVKGYGRIRDVIL-----KNGFGFVEFEDYR-DADDAV   54 (262)
Q Consensus         4 ~~l~V~nl~~~---------~t~~~l~~~F~~~G~v~~v~i-----~~g~afV~f~~~~-~a~~a~   54 (262)
                      -+++|-|++..         ++.++|.+.|..|..++-..+     ..|++.|+|...- --..|+
T Consensus         9 wmgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv~~l~~~~gh~g~aiv~F~~~w~Gf~~A~   74 (116)
T PF03468_consen    9 WMGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPLYGKQGHTGFAIVEFNKDWSGFKNAM   74 (116)
T ss_dssp             -EEEEE----EE-TTS-EE---SHHHHHHHHH---SEEEEEEETTEEEEEEEEE--SSHHHHHHHH
T ss_pred             CEEEEEcCccccCCCCceeccCHHHHHHHHHhcCCceeEECcCCCCCcEEEEEEECCChHHHHHHH
Confidence            36778888653         567889999999987654433     3689999999643 334455

SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.

>KOG1295|consensus

Probab=82.53  E-value=1.3  Score=36.54  Aligned_cols=60  Identities=17%  Similarity=0.304  Sum_probs=46.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCc-eeEEEe----------eCcEEEEEeCChhhHHHHHHHhcCccc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGR-IRDVIL----------KNGFGFVEFEDYRDADDAVYELNGKSL   62 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~-v~~v~i----------~~g~afV~f~~~~~a~~a~~~l~~~~~   62 (262)
                      -+.|.|.+||+.+|+++|.+-...|-. |.....          .-+.|||.|..+++.......++|..|
T Consensus         7 ~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if   77 (376)
T KOG1295|consen    7 KVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF   77 (376)
T ss_pred             ceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence            468899999999999999998877643 222222          146899999999999888888888754

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional

Probab=82.20  E-value=24  Score=32.21  Aligned_cols=61  Identities=7%  Similarity=0.129  Sum_probs=42.6

Q ss_pred             CCCCCHHHHHHHhhcCCceE-----EEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        122 SSRVSWQDLKDFMRQVGEVC-----YADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       122 ~~~~~~~~l~~~f~~~g~i~-----~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ...++..+|-.++..-+.|.     .+.+.   ..+.||+... ..+...+..|++..+.|+.+.+..+.
T Consensus       496 ~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~---~~~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  561 (629)
T PRK11634        496 DDGVEVRHIVGAIANEGDISSRYIGNIKLF---ASHSTIELPK-GMPGEVLQHFTRTRILNKPMNMQLLG  561 (629)
T ss_pred             ccCCCHHHHHHHHHhhcCCChhhCCcEEEe---CCceEEEcCh-hhHHHHHHHhccccccCCceEEEECC
Confidence            45677777777776555443     33443   4577888754 44778888899999999999988764

>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=81.44  E-value=9.7  Score=23.18  Aligned_cols=56  Identities=16%  Similarity=0.197  Sum_probs=41.8

Q ss_pred             CCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        123 SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       123 ~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      ..++.++++..+..|+...   +... +.--||.|.+..+|+++....+|..+.+..+.+
T Consensus        10 ~~~~v~d~K~~Lr~y~~~~---I~~d-~tGfYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M   65 (66)
T PF11767_consen   10 HGVTVEDFKKRLRKYRWDR---IRDD-RTGFYIVFNDSKEAERCFRAEDGTLFFTYRMQM   65 (66)
T ss_pred             CCccHHHHHHHHhcCCcce---EEec-CCEEEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence            4567789999999987432   2222 233589999999999999999999887776543

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

>PF15513 DUF4651: Domain of unknown function (DUF4651)

Probab=81.13  E-value=3.6  Score=24.53  Aligned_cols=18  Identities=17%  Similarity=0.434  Sum_probs=15.6

Q ss_pred             HHHHHHHhcCCceeEEEe
Q psy10320         18 RDLEKFVKGYGRIRDVIL   35 (262)
Q Consensus        18 ~~l~~~F~~~G~v~~v~i   35 (262)
                      .+|+++|+..|+|.-+.+
T Consensus         9 ~~iR~~fs~lG~I~vLYv   26 (62)
T PF15513_consen    9 AEIRQFFSQLGEIAVLYV   26 (62)
T ss_pred             HHHHHHHHhcCcEEEEEE
Confidence            579999999999977766

>KOG4483|consensus

Probab=80.84  E-value=4.2  Score=33.93  Aligned_cols=53  Identities=21%  Similarity=0.280  Sum_probs=43.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCce-eEEE-eeCcEEEEEeCChhhHHHHHHHh
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRI-RDVI-LKNGFGFVEFEDYRDADDAVYEL   57 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v-~~v~-i~~g~afV~f~~~~~a~~a~~~l   57 (262)
                      ..|-|-|+|...-.+||...|+.|+.- -+|. |-...||..|.....|..|| .|
T Consensus       392 HVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdthalaVFss~~~AaeaL-t~  446 (528)
T KOG4483|consen  392 HVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDTHALAVFSSVNRAAEAL-TL  446 (528)
T ss_pred             ceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecceeEEeecchHHHHHHh-hc
Confidence            578899999999999999999999742 2333 34789999999999999999 44

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	262
3beg_B	115	Crystal Structure Of Sr Protein Kinase 1 Complexed		1e-13
2o3d_A	113	Structure Of Human Sf2ASF RNA RECOGNITION MOTIF 2 (		2e-13
1wg4_A	98	Solution Structure Of Rrm Domain In Protein Bab3198		4e-11
2hvz_A	101	Solution Structure Of The Rrm Domain Of Sr Rich Fac		8e-11
2i2y_A	150	Solution Structure Of The Rrm Of Srp20 Bound To The		6e-10
1x4a_A	109	Solution Structure Of Rrm Domain In Splicing Factor		6e-10
1x4c_A	108	Solution Structure Of Rrm Domain In Splicing Factor		8e-10
2i38_A	150	Solution Structure Of The Rrm Of Srp20 Length = 150		2e-09
1x5s_A	102	Solution Structure Of Rrm Domain In A18 Hnrnp Lengt		3e-09
2fy1_A	116	A Dual Mode Of Rna Recognition By The Rbmy Protein		2e-07
2jvo_A	108	Segmental Isotope Labeling Of Npl3 Length = 108		5e-07
2osq_A	74	Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein Length		2e-06
2krr_A	180	Solution Structure Of The Rbd1,2 Domains From Human		4e-06
2kvi_A	96	Structure Of Nab3 Rrm Length = 96		5e-06
2dgs_A	99	Solution Structure Of The Second Rna Binding Domain		9e-06
2dnq_A	90	Solution Structure Of Rna Binding Domain 1 In Rna-B		2e-05
3md3_A	166	Crystal Structure Of The First Two Rrm Domains Of Y		2e-05
2qfj_A	216	Crystal Structure Of First Two Rrm Domains Of Fir B		2e-05
2do4_A	100	Solution Structure Of The Rna Binding Domain Of Squ		2e-05
1fje_B	175	Solution Structure Of Nucleolin Rbd12 In Complex Wi		3e-05
2xnq_A	97	Structural Insights Into Cis Element Recognition Of		3e-05
2xnr_A	97	Structural Insights Into Cis Element Recognition Of		4e-05
1wf1_A	110	Solution Structure Of Rrm Domain In Rna-Binding Pro		4e-05
2err_A	109	Nmr Structure Of The Rna Binding Domain Of Human Fo		7e-05
2jvr_A	111	Segmental Isotope Labeling Of Npl3p Length = 111		7e-05
2cq3_A	103	Solution Structure Of Rna Binding Domain In Rna Bin		7e-05
2kxf_A	199	Solution Structure Of The First Two Rrm Domains Of		7e-05
2dnp_A	90	Solution Structure Of Rna Binding Domain 2 In Rna-B		1e-04
1fnx_H	174	Solution Structure Of The Huc Rbd1-Rbd2 Complexed W		1e-04
2l41_A	77	Nab3 Rrm - Ucuu Complex Length = 77		1e-04
2lea_A	135	Solution Structure Of Human Srsf2 (Sc35) Rrm Length		2e-04
1d9a_A	85	Solution Structure Of The Second Rna-Binding Domain		3e-04
3sde_B	261	Crystal Structure Of A Paraspeckle-Protein Heterodi		3e-04
3sde_A	261	Crystal Structure Of A Paraspeckle-Protein Heterodi		3e-04
2osr_A	87	Nmr Structure Of Rrm-2 Of Yeast Npl3 Protein Length		4e-04
2kn4_A	158	The Structure Of The Rrm Domain Of Sc35 Length = 15		5e-04
2dgv_A	92	Solution Structure Of The Rna Binding Domain In Het		5e-04
2dh9_A	89	Solution Structure Of The C-Terminal Rna Binding Do		6e-04
1fxl_A	167	Crystal Structure Of Hud And Au-Rich Element Of The		6e-04
2cqb_A	102	Solution Structure Of The Rna Recognition Motif In		7e-04

>pdb|3BEG|B Chain B, Crystal Structure Of Sr Protein Kinase 1 Complexed To Its Substrate AsfSF2 Length = 115

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/72 (51%), Positives = 48/72 (66%), Gaps = 3/72 (4%)
Query: 105 RYGPPTR-SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDM 163
           RYGPP+R S++R++V  L    SWQDLKD MR+ G+VCYAD ++     GVVEF    DM
Sbjct: 7   RYGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR--DGTGVVEFVRKEDM 64
Query: 164 KKALDKLDNAEL 175
             A+ KLDN + 
Sbjct: 65  TYAVRKLDNTKF 76

>pdb|2O3D|A Chain A, Structure Of Human Sf2ASF RNA RECOGNITION MOTIF 2 (RRM2) Length = 113

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/72 (51%), Positives = 48/72 (66%), Gaps = 3/72 (4%)
Query: 105 RYGPPTR-SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDM 163
           RYGPP+R S++R++V  L    SWQDLKD MR+ G+VCYAD ++     GVVEF    DM
Sbjct: 6   RYGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR--DGTGVVEFVRKEDM 63
Query: 164 KKALDKLDNAEL 175
             A+ KLDN + 
Sbjct: 64  TYAVRKLDNTKF 75

>pdb|1WG4|A Chain A, Solution Structure Of Rrm Domain In Protein Bab31986 Length = 98

Iteration: 1
 Score = 65.1 bits (157), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 35/69 (50%), Positives = 44/69 (63%), Gaps = 3/69 (4%)
Query: 108 PPTR-SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKA 166
           PPTR SD R++V  L    SWQDLKD MR+ G+VCYAD  K     G+VE+    DM+ A
Sbjct: 9   PPTRRSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK--DGMGMVEYLRKEDMEYA 66
Query: 167 LDKLDNAEL 175
           L KLD+ + 
Sbjct: 67  LRKLDDTKF 75

>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8 Length = 101

Iteration: 1
 Score = 63.9 bits (154), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 38/76 (50%), Positives = 50/76 (65%), Gaps = 3/76 (3%)
Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN--GFGFVEFEDYRDADDAVYELNGKS 61
          KVY+G L  G  + +LE+    YG +R V I +N  GF FVEFED RDA+DAV  L+GK 
Sbjct: 2  KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKV 61
Query: 62 LLGERVTVEIAKGIDR 77
          + G RV VE++ G+ R
Sbjct: 62 ICGSRVRVELSTGMPR 77

>pdb|2I2Y|A Chain A, Solution Structure Of The Rrm Of Srp20 Bound To The Rna Cauc Length = 150

Iteration: 1
 Score = 61.2 bits (147), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 37/77 (48%), Positives = 49/77 (63%), Gaps = 3/77 (3%)
Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN--GFGFVEFEDYRDADDAVYELNGK 60
            KVY+G L     + +LE+    YG +R V + +N  GF FVEFED RDA DAV EL+G+
Sbjct: 74  CKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGR 133
Query: 61  SLLGERVTVEIAKGIDR 77
           +L G RV VE++ G  R
Sbjct: 134 TLCGCRVRVELSNGEKR 150

>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2 Length = 109

Iteration: 1
 Score = 60.8 bits (146), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 34/75 (45%), Positives = 45/75 (60%), Gaps = 5/75 (6%)
Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-----GFGFVEFEDYRDADDAVYELN 58
           ++Y+G LP  +R +D+E     YG IRD+ LKN      F FVEFED RDA+DAVY  +
Sbjct: 23 CRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRD 82
Query: 59 GKSLLGERVTVEIAK 73
          G    G R+ VE  +
Sbjct: 83 GYDYDGYRLRVEFPR 97

>pdb|1X4C|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 2 Length = 108

Iteration: 1
 Score = 60.8 bits (146), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 30/63 (47%), Positives = 40/63 (63%), Gaps = 2/63 (3%)
Query: 113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDN 172
           ++R++V  L    SWQDLKD MR+ G+VCYAD ++     GVVEF    DM  A+ KLDN
Sbjct: 15  ENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR--DGTGVVEFVRKEDMTYAVRKLDN 72
Query: 173 AEL 175
            + 
Sbjct: 73  TKF 75

>pdb|2I38|A Chain A, Solution Structure Of The Rrm Of Srp20 Length = 150

Iteration: 1
 Score = 59.7 bits (143), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 36/77 (46%), Positives = 49/77 (63%), Gaps = 3/77 (3%)
Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN--GFGFVEFEDYRDADDAVYELNGK 60
            KVY+G L     + +LE+    YG +R V + +N  GF FVEFED RDA DAV +L+G+
Sbjct: 74  CKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRDLDGR 133
Query: 61  SLLGERVTVEIAKGIDR 77
           +L G RV VE++ G  R
Sbjct: 134 TLCGCRVRVELSNGEKR 150

>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp Length = 102

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 29/76 (38%), Positives = 46/76 (60%), Gaps = 8/76 (10%)
Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
          K+++GGL +   E+ LE+    YG+I +V++          GFGFV FE+  DA DA+  
Sbjct: 14 KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73
Query: 57 LNGKSLLGERVTVEIA 72
          +NGKS+ G ++ V+ A
Sbjct: 74 MNGKSVDGRQIRVDQA 89

>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein Length = 116

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 29/76 (38%), Positives = 43/76 (56%), Gaps = 7/76 (9%)
Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYEL 57
          K++IGGL     E+ L+     +G I +V+L         GF F+ FE+  DA +A  ++
Sbjct: 9  KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDM 68
Query: 58 NGKSLLGERVTVEIAK 73
          NGKSL G+ + VE AK
Sbjct: 69 NGKSLHGKAIKVEQAK 84

>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3 Length = 108

Iteration: 1
 Score = 51.2 bits (121), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 43/73 (58%)
Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           +  T++++   P  V+E +L +    +G +++V + NGF FVEFE+   A  A+ E++GK
Sbjct: 29  LSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESAAKAIEEVHGK 88
Query: 61  SLLGERVTVEIAK 73
           S   + + V  +K
Sbjct: 89  SFANQPLEVVYSK 101

>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein Length = 74

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 42/70 (60%)
Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
          T++++   P  V+E +L +    +G +++V + NGF FVEFE+   A  A+ E++GKS  
Sbjct: 5  TRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESAAKAIEEVHGKSFA 64
Query: 64 GERVTVEIAK 73
           + + V  +K
Sbjct: 65 NQPLEVVYSK 74

>pdb|2KRR|A Chain A, Solution Structure Of The Rbd1,2 Domains From Human Nucleoli Length = 180

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 34/144 (23%), Positives = 60/144 (41%), Gaps = 31/144 (21%)
Query: 39  FGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGW 98
           FG+V+FE   D + A+ EL G  + G  + +E  KG D  +ER  R              
Sbjct: 50  FGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKGKDSKKERDAR-------------- 94
Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFE 158
                            L+ +NL  +V+  +LK+      E+       + +    +EF+
Sbjct: 95  ----------------TLLAKNLPYKVTQDELKEVFEDAAEIRLVSKDGKSKGIAYIEFK 138
Query: 159 SSSDMKKALDKLDNAELNGRRIRL 182
           + +D +K  ++    E++GR I L
Sbjct: 139 TEADAEKTFEEKQGTEIDGRSISL 162

>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm Length = 96

Iteration: 1
 Score = 48.1 bits (113), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 22/77 (28%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 4  TKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL 62
          ++++IG LP   V + DL +    YG I  + +KN FGF++F++ +   DA+   + +  
Sbjct: 11 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIECESQEMN 70
Query: 63 LGERVTVEIAKGIDRSQ 79
           G+++ +E++    R Q
Sbjct: 71 FGKKLILEVSSSNARPQ 87

>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In Daz- Associated Protein 1 Length = 99

Iteration: 1
 Score = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 46/78 (58%), Gaps = 9/78 (11%)
Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
           K+++GG+P+   E +L ++ K +G + +V++          GFGF+ FED +  D AV 
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV- 69
Query: 56 ELNGKSLLGERVTVEIAK 73
           ++   ++G++V V+ A+
Sbjct: 70 NMHFHDIMGKKVEVKRAE 87

>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding Protein 30 Length = 90

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 38/70 (54%)
Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
           K++IG LP    E+++    + YG++ +  +   +GFV  ED   A+DA+  L+   L 
Sbjct: 9  VKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNYGFVHIEDKTAAEDAIRNLHHYKLH 68
Query: 64 GERVTVEIAK 73
          G  + VE +K
Sbjct: 69 GVNINVEASK 78

>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast Poly Binding Protein (Pub1) Length = 166

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 45/184 (24%), Positives = 79/184 (42%), Gaps = 32/184 (17%)
Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDV---ILKNG----FGFVEFEDYRDADDAVYELN 58
           +Y+G L   + E  L+++ +  G I ++   I KN     + FVE+    DA+ A+  LN
Sbjct: 3   LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLN 62
Query: 59  GKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIV 118
           GK +    V +  A    +SQ+                      DD +      D  + V
Sbjct: 63  GKQIENNIVKINWAF---QSQQSSS-------------------DDTFNLFV-GDLNVNV 99
Query: 119 ENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGR 178
           ++ + R +++D   ++   G V +       R  G V F S  D + A+D +   +LNGR
Sbjct: 100 DDETLRNAFKDFPSYLS--GHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGR 157
Query: 179 RIRL 182
            +R+
Sbjct: 158 PLRI 161

>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To Ssdna From A Portion Of Fuse Length = 216

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 40/194 (20%), Positives = 81/194 (41%), Gaps = 34/194 (17%)
Query: 2   VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDA 53
           + ++VY+G + Y + E  + +    +G I+ + +          GF FVE+E    A  A
Sbjct: 27  IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLA 86
Query: 54  VYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSD 113
           + ++N   L G  + V            GR         P   G      D+     R+ 
Sbjct: 87  LEQMNSVMLGGRNIKV------------GR---------PSNIGQAQPIIDQLAEEARAF 125
Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALD 168
           +R+ V ++   +S  D+K      G++  A   +     +H+  G +E+E +   + A+ 
Sbjct: 126 NRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVS 185
Query: 169 KLDNAELNGRRIRL 182
            ++  +L G+ +R+
Sbjct: 186 SMNLFDLGGQYLRV 199

>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous Cell Carcinoma Antigen Recognized By T Cells 3 Length = 100

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/75 (28%), Positives = 41/75 (54%), Gaps = 7/75 (9%)
Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYEL 57
          K++I GLP+   + +LE+  K +G ++D+ L         G  +VE+E+   A  AV ++
Sbjct: 19 KLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKM 78
Query: 58 NGKSLLGERVTVEIA 72
          +G ++    + V I+
Sbjct: 79 DGMTIKENIIKVAIS 93

>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre Rna Length = 175

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 35/144 (24%), Positives = 61/144 (42%), Gaps = 31/144 (21%)
Query: 39  FGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGW 98
           FG+V+FE   D + A+ EL G  + G  + +E  KG D  + R  R              
Sbjct: 56  FGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKGRDSKKVRAAR-------------- 100
Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFE 158
                            L+ +NLS  ++  +LK+      E+       + +    +EF+
Sbjct: 101 ----------------TLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFK 144
Query: 159 SSSDMKKALDKLDNAELNGRRIRL 182
           S +D +K L++   AE++GR + L
Sbjct: 145 SEADAEKNLEEKQGAEIDGRSVSL 168

>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non- Polyadenylated Rnas By The Nab3-Rrm Length = 97

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 42/70 (60%), Gaps = 1/70 (1%)
Query: 4  TKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL 62
          ++++IG LP   V + DL +    YG I  + +KN FGF++F++ +   DA+   + +  
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIEXESQEMN 82
Query: 63 LGERVTVEIA 72
           G+++ +E++
Sbjct: 83 FGKKLILEVS 92

>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non- Polyadenylated Rnas By The Nab3-Rrm Length = 97

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 42/70 (60%), Gaps = 1/70 (1%)
Query: 4  TKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL 62
          ++++IG LP   V + DL +    YG I  + +KN FGF++F++ +   DA+   + +  
Sbjct: 23 SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIECESQEMN 82
Query: 63 LGERVTVEIA 72
           G+++ +E++
Sbjct: 83 FGKKLILEVS 92

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 2  VGTKVYIGGLPYG-VRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
          + ++V+IG L    V++ D+E     YGR+    +  G+ FV++ + R A  AV   NG+
Sbjct: 26 INSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKGYAFVQYSNERHARAAVLGENGR 85
Query: 61 SLLGERVTVEIA 72
           L G+ + + +A
Sbjct: 86 VLAGQTLDINMA 97

>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In Complex With Ugcaugu Length = 109

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 26/76 (34%), Positives = 43/76 (56%), Gaps = 6/76 (7%)
Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-----GFGFVEFEDYRDADDAVYELN 58
           ++++  +P+  R+ DL +    +G+I DV I+ N     GFGFV FE+  DAD A  +L+
Sbjct: 31  RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLH 90
Query: 59  GKSLLGERVTVEIAKG 74
           G  + G ++ V  A  
Sbjct: 91  GTVVEGRKIEVNNATA 106

>pdb|2JVR|A Chain A, Segmental Isotope Labeling Of Npl3p Length = 111

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 114 HRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAHKRHRN-EGVVEFESSSDMKKALDKLD 171
           +R+ ++NL    SWQDLKD  R+   E  ++  + R  +  G +EF S   + +AL++L+
Sbjct: 29  YRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALERLN 88
Query: 172 NAELNGRRIRLIED 185
           N E  G  I +  D
Sbjct: 89  NIEFRGSVITVERD 102

>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding Motif Protein 9 Length = 103

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 26/76 (34%), Positives = 43/76 (56%), Gaps = 6/76 (7%)
Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-----GFGFVEFEDYRDADDAVYELN 58
          ++++  +P+  R+ DL +    +G+I DV I+ N     GFGFV FE+  DAD A  +L+
Sbjct: 17 RLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLH 76
Query: 59 GKSLLGERVTVEIAKG 74
          G  + G ++ V  A  
Sbjct: 77 GTVVEGRKIEVNNATA 92

>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fbp-Interacting Repressor (Fir) Length = 199

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 39/194 (20%), Positives = 79/194 (40%), Gaps = 34/194 (17%)
Query: 2   VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDA 53
           +  +VY+G + Y + E  + +    +G I+ + +          GF FVE+E    A  A
Sbjct: 12  IMCRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLA 71
Query: 54  VYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSD 113
           + ++N   L G  + V            GR         P   G      D+     R+ 
Sbjct: 72  LEQMNSVMLGGRNIKV------------GR---------PSNIGQAQPIIDQLAEEARAF 110
Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALD 168
           +R+ V ++   +S  D+K      G++      +     +H+  G +E+E +   + A+ 
Sbjct: 111 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 170
Query: 169 KLDNAELNGRRIRL 182
            ++  +L G+ +R+
Sbjct: 171 SMNLFDLGGQYLRV 184

>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding Protein 14 Length = 90

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
          K+++G +      ++L    +  GR+ +  +   + FV  E   DA  A+ +LNGK + G
Sbjct: 11 KIFVGNVSAACTSQELRSLFERRGRVIECDVVKDYAFVHMEKEADAKAAIAQLNGKEVKG 70
Query: 65 ERVTVEIA-KGIDRS 78
          +R+ VE++ KG  +S
Sbjct: 71 KRINVELSTKGQKKS 85

>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The Au-Rich Element Length = 174

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 43/77 (55%), Gaps = 10/77 (12%)
Query: 6   VYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAVYEL 57
           +Y+ GLP  + ++++E+    YGRI        +   +  G GF+ F+   +A++A+  L
Sbjct: 93  LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 58  NGKSLLG--ERVTVEIA 72
           NG+  LG  E +TV+ A
Sbjct: 153 NGQKPLGAAEPITVKFA 169

>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex Length = 77

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 42/70 (60%), Gaps = 1/70 (1%)
Query: 4  TKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL 62
          ++++IG LP   V + DL +    YG I  + +KN FGF++F++ +   DA+   + +  
Sbjct: 3  SRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIECESQEMN 62
Query: 63 LGERVTVEIA 72
           G+++ +E++
Sbjct: 63 FGKKLILEVS 72

>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm Length = 135

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 8/78 (10%)
Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
           T + +  L Y      L +  + YGR+ DV +          GF FV F D RDA+DA+ 
Sbjct: 48  TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 107
Query: 56  ELNGKSLLGERVTVEIAK 73
            ++G  L G  + V++A+
Sbjct: 108 AMDGAVLDGRELRVQMAR 125

>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2) Of Hu Antigen C (Huc) Length = 85

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/77 (31%), Positives = 43/77 (55%), Gaps = 10/77 (12%)
Query: 6  VYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAVYEL 57
          +Y+ GLP  + ++++E+    YGRI        +   +  G GF+ F+   +A++A+  L
Sbjct: 4  LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 58 NGKSLLG--ERVTVEIA 72
          NG+  LG  E +TV+ A
Sbjct: 64 NGQKPLGAAEPITVKFA 80

>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer, Pspc1NONO Length = 261

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 41/172 (23%), Positives = 67/172 (38%), Gaps = 44/172 (25%)
Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKS 61
           +++++G LP  + E ++ K  + YG+  +V +    GFGF+  E    A+ A  EL+   
Sbjct: 23  SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMP 82
Query: 62  LLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENL 121
           L G+++ V  A                           H               L V NL
Sbjct: 83  LRGKQLRVRFA--------------------------CHSAS------------LTVRNL 104
Query: 122 SSRVSWQDLKDFMRQVGE----VCYADAHKRHRNEGVVEFESSSDMKKALDK 169
              VS + L++     G+    V   D   R   +G+VEF      +KALD+
Sbjct: 105 PQYVSNELLEEAFSVFGQVERAVVIVDDRGRPSGKGIVEFSGKPAARKALDR 156

>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer, Pspc1NONO Length = 261

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 41/172 (23%), Positives = 66/172 (38%), Gaps = 44/172 (25%)
Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKS 61
            ++++G LP  + E D ++  + YG   +V +    GFGF+  E    A+ A  EL+G  
Sbjct: 23  CRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTI 82
Query: 62  LLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENL 121
           L    + +  A             +G+                           L V+NL
Sbjct: 83  LKSRPLRIRFAT------------HGAA--------------------------LTVKNL 104
Query: 122 SSRVSWQDLKDFMRQVGE----VCYADAHKRHRNEGVVEFESSSDMKKALDK 169
           S  VS + L+    Q G     V   D   R   +G VEF +    +KAL++
Sbjct: 105 SPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALER 156

>pdb|2OSR|A Chain A, Nmr Structure Of Rrm-2 Of Yeast Npl3 Protein Length = 87

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 114 HRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAHKRHRN-EGVVEFESSSDMKKALDKLD 171
           +R+ ++NL    SWQDLKD  R+   E  ++  + R  +  G +EF S   + +AL++L+
Sbjct: 7   YRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALERLN 66
Query: 172 NAELNGRRIRLIED 185
           N E  G  I +  D
Sbjct: 67  NIEFRGSVITVERD 80

>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35 Length = 158

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 8/78 (10%)
Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
           T + +  L Y      L +  + YGR+ DV +          GF FV F D RDA+DA+ 
Sbjct: 71  TSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMD 130
Query: 56  ELNGKSLLGERVTVEIAK 73
            ++G  L G  + V++A+
Sbjct: 131 AMDGAVLDGRELRVQMAR 148

>pdb|2DGV|A Chain A, Solution Structure Of The Rna Binding Domain In Heterogeneous Nuclear Ribonucleoprotein M Length = 92

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADA---HKRHRNEGVVEFESSSDMKKALDKLD 171
           ++ V NL    +W+ LKD   + G V YAD    + + +  GVV+FES    ++A   ++
Sbjct: 10  QIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMN 69
Query: 172 NAELNGRRI 180
             +L+GR I
Sbjct: 70  GMKLSGREI 78

>pdb|2DH9|A Chain A, Solution Structure Of The C-Terminal Rna Binding Domain In Heterogeneous Nuclear Ribonucleoprotein M Length = 89

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 3/68 (4%)
Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADA---HKRHRNEGVVEFESSSDMKKALDKLDN 172
           + V NL    +W+ LKD   + G V YAD    + + +  GVV+FES    ++A   ++ 
Sbjct: 8   IFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNG 67
Query: 173 AELNGRRI 180
            +L+GR I
Sbjct: 68  MKLSGREI 75

>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos Rna Length = 167

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 44/77 (57%), Gaps = 10/77 (12%)
Query: 6   VYIGGLPYGVRERDLEKFVKGYGRI---RDVI-----LKNGFGFVEFEDYRDADDAVYEL 57
           +Y+ GLP  + +++LE+    YGRI   R ++     +  G GF+ F+   +A++A+  L
Sbjct: 91  LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 58  NGKSLLG--ERVTVEIA 72
           NG+   G  E +TV+ A
Sbjct: 151 NGQKPSGATEPITVKFA 167

>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In Peptidyl- Prolyl Cis-Trans Isomerase E Length = 102

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 31/92 (33%), Positives = 44/92 (47%), Gaps = 11/92 (11%)
Query: 1  MVGTK--VYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDA 50
          M  TK  +Y+GGL   V ++ L      +G I D+ +          GF FVEFE   DA
Sbjct: 8  MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDA 67
Query: 51 DDAVYELNGKSLLGERVTVEIAKGIDRSQERG 82
            A+  +N   L G  + V +AK + R +E G
Sbjct: 68 AAAIDNMNESELFGRTIRVNLAKPM-RIKESG 98

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	262
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	8e-31
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	1e-06
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	1e-28
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	4e-10
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	4e-28
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	8e-06
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	8e-28
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	9e-11
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	2e-27
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	3e-10
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	2e-26
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	2e-06
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	2e-26
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	3e-12
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	6e-09
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	6e-26
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	2e-11
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	3e-25
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	7e-14
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	5e-25
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	2e-11
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	7e-25
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	9e-09
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	1e-24
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	8e-07
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	1e-24
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	9e-12
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	1e-06
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	6e-24
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	9e-13
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	7e-24
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	2e-11
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	7e-23
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	1e-10
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	9e-08
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	8e-23
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	1e-19
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	7e-07
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	2e-22
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	3e-09
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	2e-06
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	3e-22
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	7e-08
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	2e-21
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	9e-11
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	5e-21
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	1e-16
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	6e-10
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	6e-08
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	6e-21
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	1e-10
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	4e-20
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	1e-12
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	2e-07
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	4e-19
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-10
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	6e-19
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	1e-08
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	5e-18
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	2e-08
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	5e-18
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	6e-08
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	2e-17
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	9e-11
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	3e-07
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	2e-17
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	4e-11
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	3e-05
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	3e-17
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	1e-11
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	4e-17
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	3e-09
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	2e-16
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	7e-10
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	3e-16
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	3e-08
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	9e-16
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	1e-08
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	9e-16
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	6e-09
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	1e-15
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	4e-06
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	1e-15
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	4e-07
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	2e-15
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	2e-11
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	2e-15
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	2e-10
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	3e-15
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	2e-08
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	3e-15
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	1e-09
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	3e-15
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	1e-08
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	4e-15
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	8e-09
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	4e-15
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	1e-09
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	5e-15
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	4e-10
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	5e-15
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	1e-11
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	7e-15
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	1e-10
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	1e-14
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	5e-09
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	1e-14
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	1e-12
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	2e-14
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	1e-08
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	2e-14
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	6e-10
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	3e-14
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	7e-11
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	3e-14
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	2e-08
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	3e-14
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	5e-09
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	3e-14
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	1e-12
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	5e-14
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	2e-12
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	5e-14
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	6e-06
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	6e-14
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	2e-10
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	8e-14
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	4e-11
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	5e-08
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	9e-14
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	8e-09
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	9e-14
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	2e-13
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	1e-13
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	3e-09
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	1e-13
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	8e-08
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	1e-13
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	4e-05
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	1e-13
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	1e-12
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	1e-13
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	1e-13
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	4e-08
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	2e-13
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	1e-08
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	3e-13
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	1e-08
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	3e-13
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	1e-09
1x5o_A	114	RNA binding motif, single-stranded interacting pro	4e-13
1x5o_A	114	RNA binding motif, single-stranded interacting pro	3e-04
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	4e-13
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	7e-08
1x5p_A	97	Negative elongation factor E; structure genomics,	4e-13
1x5p_A	97	Negative elongation factor E; structure genomics,	6e-04
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	5e-13
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	1e-09
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	3e-07
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	5e-13
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	5e-13
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	2e-10
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	5e-13
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	7e-07
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	5e-13
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	7e-12
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	6e-13
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	4e-08
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	6e-13
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	2e-08
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	7e-13
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	2e-10
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	7e-13
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	5e-10
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	9e-13
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	2e-06
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	9e-13
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	1e-09
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	1e-12
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	2e-06
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	1e-12
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	1e-06
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	1e-12
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	8e-07
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	1e-12
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	2e-08
1x4e_A	85	RNA binding motif, single-stranded interacting pro	1e-12
1x4e_A	85	RNA binding motif, single-stranded interacting pro	1e-06
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	2e-12
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	2e-07
2dis_A	109	Unnamed protein product; structural genomics, RRM	3e-12
2dis_A	109	Unnamed protein product; structural genomics, RRM	3e-05
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	3e-12
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-07
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	3e-12
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	3e-12
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	3e-07
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	4e-12
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	4e-12
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	5e-08
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	2e-06
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	4e-12
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	8e-09
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	4e-12
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	5e-06
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	5e-12
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	9e-07
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	5e-12
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	1e-09
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	6e-12
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	7e-12
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	7e-12
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	1e-07
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	9e-12
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	3e-04
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	1e-11
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	3e-09
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	1e-11
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	4e-11
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	1e-11
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	4e-09
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	2e-11
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	5e-08
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	2e-11
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	3e-09
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	3e-11
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	1e-08
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	4e-11
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	1e-08
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	5e-11
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	5e-11
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	7e-04
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	6e-11
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	2e-05
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	9e-11
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	2e-07
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	9e-11
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	7e-07
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	1e-10
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	3e-06
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	1e-10
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	2e-10
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	3e-09
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	2e-10
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	4e-05
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	2e-10
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-10
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-04
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	2e-10
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	1e-06
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	5e-10
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	5e-10
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	8e-07
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	6e-10
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	9e-06
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	6e-10
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	1e-07
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	7e-10
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	6e-08
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	8e-10
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	5e-07
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	8e-10
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	6e-05
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	1e-09
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	1e-09
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	1e-09
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	4e-05
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	1e-09
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	2e-09
2div_A	99	TRNA selenocysteine associated protein; structural	3e-09
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	4e-09
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	1e-07
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	4e-09
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	4e-09
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	7e-09
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	8e-09
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	1e-07
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	8e-09
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	9e-09
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	4e-07
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	1e-08
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	2e-07
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	1e-08
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	1e-08
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	4e-04
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	2e-08
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	2e-08
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	2e-06
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	3e-08
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	4e-08
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	4e-08
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	7e-08
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	1e-07
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	1e-07
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	8e-07
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	1e-07
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	3e-06
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	1e-07
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	1e-07
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	1e-07
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	8e-05
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	2e-07
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	2e-07
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	3e-07
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	1e-06
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	1e-06
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	4e-05
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	2e-06
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	3e-04
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	1e-05
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	3e-05
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	3e-05
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	2e-04
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	5e-05
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	1e-04
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	1e-04
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	5e-04
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	5e-04
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	6e-04
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	7e-04

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

 Score =  109 bits (274), Expect = 8e-31
 Identities = 24/85 (28%), Positives = 47/85 (55%), Gaps = 2/85 (2%)

Query: 3  GTKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKS 61
           ++++IG LP   V + DL +    YG I  + +KN FGF++F++ +   DA+   + + 
Sbjct: 10 KSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIECESQEM 69

Query: 62 LLGERVTVEIAKGIDRSQ-ERGRRG 85
            G+++ +E++    R Q + G  G
Sbjct: 70 NFGKKLILEVSSSNARPQFDHGDHG 94

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

 Score = 44.9 bits (107), Expect = 1e-06
 Identities = 15/91 (16%), Positives = 33/91 (36%), Gaps = 6/91 (6%)

Query: 110 TRSDHRLIVENLSSR-VSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALD 168
                RL + NL  + VS +DL       G +   +        G ++F++   ++ A++
Sbjct: 7   IPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQIN---IKNAFGFIQFDNPQSVRDAIE 63

Query: 169 KLDNAELNGRRIRLIEDKPRGGGRGRSRSSS 199
                   G+++ L  +      R +     
Sbjct: 64  CESQEMNFGKKLIL--EVSSSNARPQFDHGD 92

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score =  103 bits (259), Expect = 1e-28
 Identities = 24/85 (28%), Positives = 42/85 (49%), Gaps = 4/85 (4%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
           K++IG LP    E+++    + YG++ +  +   +GFV  ED   A+DA+  L+   L 
Sbjct: 9  VKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNYGFVHIEDKTAAEDAIRNLHHYKLH 68

Query: 64 GERVTVEIAKGIDRSQERGRRGYGS 88
          G  + VE +K     + +   G  S
Sbjct: 69 GVNINVEASKN----KSKASSGPSS 89

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 54.1 bits (131), Expect = 4e-10
 Identities = 20/92 (21%), Positives = 39/92 (42%), Gaps = 5/92 (5%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKAL 167
             +    +L + NL    + Q+++    Q G+V   D  K +   G V  E  +  + A+
Sbjct: 3   SGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNY---GFVHIEDKTAAEDAI 59

Query: 168 DKLDNAELNGRRIRLIEDKPRGGGRGRSRSSS 199
             L + +L+G  I +  +  +   +  S  SS
Sbjct: 60  RNLHHYKLHGVNINV--EASKNKSKASSGPSS 89

>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 =  102 bits (256), Expect = 4e-28
 Identities = 21/78 (26%), Positives = 44/78 (56%), Gaps = 1/78 (1%)

Query: 1  MVGTKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNG 59
           + ++++IG LP   V + DL +    YG I  + +KN FGF++F++ +   DA+   + 
Sbjct: 20 HMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIEXESQ 79

Query: 60 KSLLGERVTVEIAKGIDR 77
          +   G+++ +E++    R
Sbjct: 80 EMNFGKKLILEVSSSNAR 97

>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 = 42.7 bits (101), Expect = 8e-06
 Identities = 15/85 (17%), Positives = 33/85 (38%), Gaps = 6/85 (7%)

Query: 109 PTRSDHRLIVENLSSR-VSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKAL 167
            +    RL + NL  + VS +DL       G +   +        G ++F++   ++ A+
Sbjct: 18  GSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAF---GFIQFDNPQSVRDAI 74

Query: 168 DKLDNAELNGRRIRLIEDKPRGGGR 192
           +        G+++ L  +      R
Sbjct: 75  EXESQEMNFGKKLIL--EVSSSNAR 97

>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 =  101 bits (254), Expect = 8e-28
 Identities = 18/85 (21%), Positives = 38/85 (44%)

Query: 1  MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
             TK+++G +      ++L    + YG + +  +   + FV  E   DA +A+  L+  
Sbjct: 8  KASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDYAFVHMERAEDAVEAIRGLDNT 67

Query: 61 SLLGERVTVEIAKGIDRSQERGRRG 85
             G+R+ V+++    R+      G
Sbjct: 68 EFQGKRMHVQLSTSRLRTASGPSSG 92

>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 = 56.1 bits (136), Expect = 9e-11
 Identities = 23/91 (25%), Positives = 38/91 (41%), Gaps = 3/91 (3%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKA 166
           G   ++  +L V N+S   + Q+L+    + G V   D  K +     V  E + D  +A
Sbjct: 4   GSSGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDY---AFVHMERAEDAVEA 60

Query: 167 LDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           +  LDN E  G+R+ +     R        S
Sbjct: 61  IRGLDNTEFQGKRMHVQLSTSRLRTASGPSS 91

>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 =  100 bits (251), Expect = 2e-27
 Identities = 20/83 (24%), Positives = 39/83 (46%), Gaps = 1/83 (1%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL 62
            K+++G +      ++L    +  GR+ +  +   + FV  E   DA  A+ +LNGK +
Sbjct: 9  TWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKDYAFVHMEKEADAKAAIAQLNGKEV 68

Query: 63 LGERVTVEIAKGIDRSQERGRRG 85
           G+R+ VE++    +       G
Sbjct: 69 KGKRINVELSTKGQKKS-GPSSG 90

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

 Score = 54.5 bits (132), Expect = 3e-10
 Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 3/88 (3%)

Query: 109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALD 168
            + +  ++ V N+S+  + Q+L+    + G V   D  K +     V  E  +D K A+ 
Sbjct: 5   SSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKDY---AFVHMEKEADAKAAIA 61

Query: 169 KLDNAELNGRRIRLIEDKPRGGGRGRSR 196
           +L+  E+ G+RI +          G S 
Sbjct: 62  QLNGKEVKGKRINVELSTKGQKKSGPSS 89

>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 = 98.2 bits (245), Expect = 2e-26
 Identities = 23/85 (27%), Positives = 42/85 (49%), Gaps = 1/85 (1%)

Query: 2   VGTKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           + ++V+IG L    V++ D+E     YGR+    +  G+ FV++ + R A  AV   NG+
Sbjct: 26  INSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKGYAFVQYSNERHARAAVLGENGR 85

Query: 61  SLLGERVTVEIAKGIDRSQERGRRG 85
            L G+ + + +A      +     G
Sbjct: 86  VLAGQTLDINMAGEPKPDRSGPSSG 110

>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 = 44.7 bits (106), Expect = 2e-06
 Identities = 18/112 (16%), Positives = 37/112 (33%), Gaps = 4/112 (3%)

Query: 87  GSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLS-SRVSWQDLKDFMRQVGEVCYADA 145
           GS  +                 P   + R+ + NL+ + V   D++    + G V     
Sbjct: 1   GSSGSSGMSLKLQASNVTNKNDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV 60

Query: 146 HKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           HK +     V++ +    + A+   +   L G+ + +         R    S
Sbjct: 61  HKGY---AFVQYSNERHARAAVLGENGRVLAGQTLDINMAGEPKPDRSGPSS 109

>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 =  100 bits (251), Expect = 2e-26
 Identities = 37/193 (19%), Positives = 76/193 (39%), Gaps = 38/193 (19%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------GFGFVEFEDYRDADDAVYE 56
             ++IG L       +L+  +       D+ + +        FG+V+FE   D + A+ E
Sbjct: 14  FNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL-E 72

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRL 116
           L G  + G  + +      ++ + R  +                          R+   L
Sbjct: 73  LTGLKVFGNEIKL------EKPKGRDSK------------------------KVRAARTL 102

Query: 117 IVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELN 176
           + +NLS  ++  +LK+      E+       + +    +EF+S +D +K L++   AE++
Sbjct: 103 LAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEID 162

Query: 177 GRRIRLIEDKPRG 189
           GR + L     +G
Sbjct: 163 GRSVSLYYTGEKG 175

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 62.2 bits (152), Expect = 3e-12
 Identities = 17/83 (20%), Positives = 34/83 (40%), Gaps = 9/83 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN---GFGFVEFEDYRDADDAVYELNG 59
              +    L + + E +L++  +    IR V       G  ++EF+   DA+  + E  G
Sbjct: 99  ARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQG 158

Query: 60  KSLLGERVTVEIAKGIDRSQERG 82
             + G  V++        + E+G
Sbjct: 159 AEIDGRSVSL------YYTGEKG 175

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 53.0 bits (128), Expect = 6e-09
 Identities = 25/112 (22%), Positives = 44/112 (39%), Gaps = 19/112 (16%)

Query: 87  GSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA--- 143
           GS+                      +   L + NL+   S  +LK  + ++         
Sbjct: 1   GSHMVEGSES--------------TTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVV 46

Query: 144 -DAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGR 194
                 +R  G V+FES+ D++KAL +L   ++ G  I+L + K R   + R
Sbjct: 47  DVRTGTNRKFGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKGRDSKKVR 97

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

 Score = 97.0 bits (242), Expect = 6e-26
 Identities = 39/96 (40%), Positives = 51/96 (53%), Gaps = 11/96 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN---GFGFVEFEDYRDADDAVYELNGKS 61
          KVY+G L  G  + +LE+    YG +R V +     GF FVEFED RDA+DAV  L+GK 
Sbjct: 2  KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKV 61

Query: 62 LLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRG 97
          + G RV VE++         G      +  PP RR 
Sbjct: 62 ICGSRVRVELS--------TGMPRRSRFDRPPARRK 89

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

 Score = 58.1 bits (141), Expect = 2e-11
 Identities = 18/91 (19%), Positives = 32/91 (35%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAE 174
           ++ V NL +     +L+      G +      +       VEFE   D + A+  LD   
Sbjct: 2   KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKV 61

Query: 175 LNGRRIRLIEDKPRGGGRGRSRSSSSRSRSK 205
           + G R+R+             R  + R   +
Sbjct: 62  ICGSRVRVELSTGMPRRSRFDRPPARRKLLE 92

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 108

 Score = 95.2 bits (237), Expect = 3e-25
 Identities = 44/109 (40%), Positives = 54/109 (49%), Gaps = 7/109 (6%)

Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFE 158
           G        P  RS++R++V  L    SWQDLKD MR+ G+VCYAD ++     GVVEF 
Sbjct: 1   GSSGSSGGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR--DGTGVVEFV 58

Query: 159 SSSDMKKALDKLDNAELNGRRIRLI-----EDKPRGGGRGRSRSSSSRS 202
              DM  A+ KLDN +               D PR    GRSRSS   S
Sbjct: 59  RKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPRSPSYGRSRSSGPSS 107

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 108

 Score = 65.2 bits (159), Expect = 7e-14
 Identities = 21/96 (21%), Positives = 36/96 (37%), Gaps = 3/96 (3%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKNGFGFVEFEDYRDADDAVYELNGKS 61
             +V + GLP     +DL+  ++  G +    + ++G G VEF    D   AV +L+   
Sbjct: 15  ENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTK 74

Query: 62  LLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRG 97
                      +   +        YG  R+  P  G
Sbjct: 75  FRSHEGETAYIRV--KVDGPRSPSYGRSRSSGPSSG 108

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A Length = 115

 Score = 94.9 bits (236), Expect = 5e-25
 Identities = 48/114 (42%), Positives = 61/114 (53%), Gaps = 2/114 (1%)

Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFE 158
           G  R     P  RS++R++V  L    SWQDLKD MR+ G+VCYAD ++     GVVEF 
Sbjct: 2   GAPRGRYGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD--GTGVVEFV 59

Query: 159 SSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRS 212
              DM  A+ KLDN +           + +  G        SRSRS+SRSRSRS
Sbjct: 60  RKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPRSPSYGRSRSRSRSRSRSRS 113

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A Length = 115

 Score = 59.1 bits (143), Expect = 2e-11
 Identities = 19/94 (20%), Positives = 33/94 (35%), Gaps = 1/94 (1%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
           +V + GLP     +DL+  ++  G +    + ++G G VEF    D   AV +L+     
Sbjct: 18  RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFR 77

Query: 64  GERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRG 97
                    +           G    R+    R 
Sbjct: 78  SHEGETAYIRVKVDGPRSPSYGRSRSRSRSRSRS 111

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 94.5 bits (235), Expect = 7e-25
 Identities = 27/104 (25%), Positives = 43/104 (41%), Gaps = 2/104 (1%)

Query: 87  GSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVG-EVCYADA 145
           GS             R           +R+ ++NL    SWQDLKD  R+   E  ++  
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMSKLPAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSV 61

Query: 146 H-KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
           + +     G +EF S   + +AL++L+N E  G  I +  D   
Sbjct: 62  NTRDFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDDNP 105

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 51.4 bits (123), Expect = 9e-09
 Identities = 20/85 (23%), Positives = 33/85 (38%), Gaps = 9/85 (10%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRI---RDVILKN--GFGFVEFEDYRDADDAVYELNG 59
           ++ +  LP G   +DL+   +          V  ++  G G +EF       +A+  LN 
Sbjct: 30  RITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALERLNN 89

Query: 60  KSLLGERVTVEIAKGIDRSQERGRR 84
               G  +TVE     D +    RR
Sbjct: 90  IEFRGSVITVE----RDDNPPPIRR 110

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

 Score = 93.9 bits (234), Expect = 1e-24
 Identities = 23/74 (31%), Positives = 43/74 (58%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
           +  T++++   P  V+E +L +    +G +++V + NGF FVEFE+   A  A+ E++GK
Sbjct: 29  LSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESAAKAIEEVHGK 88

Query: 61  SLLGERVTVEIAKG 74
           S   + + V  +K 
Sbjct: 89  SFANQPLEVVYSKL 102

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

 Score = 45.7 bits (109), Expect = 8e-07
 Identities = 15/88 (17%), Positives = 28/88 (31%), Gaps = 3/88 (3%)

Query: 101 DRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESS 160
                      S+ RL V      V   +L +     G +      K       VEFE +
Sbjct: 19  SHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEV---KILNGFAFVEFEEA 75

Query: 161 SDMKKALDKLDNAELNGRRIRLIEDKPR 188
               KA++++       + + ++  K  
Sbjct: 76  ESAAKAIEEVHGKSFANQPLEVVYSKLP 103

>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 = 96.3 bits (240), Expect = 1e-24
 Identities = 28/196 (14%), Positives = 66/196 (33%), Gaps = 31/196 (15%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------------GFGFVEFEDYRDAD 51
           ++Y+G +P+G+ E  +  F     R+  +                  F F+EF    +  
Sbjct: 6   RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65

Query: 52  DAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTR 111
            A+   +G    G+ + +       R  +       S        G              
Sbjct: 66  QAM-AFDGIIFQGQSLKI------RRPHDYQPLPGMSENPSVYVPG------VVSTVVPD 112

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKA 166
           S H+L +  L + ++   +K+ +   G +   +  K       +     E+   +   +A
Sbjct: 113 SAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQA 172

Query: 167 LDKLDNAELNGRRIRL 182
           +  L+  +L  +++ +
Sbjct: 173 IAGLNGMQLGDKKLLV 188

>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 = 61.6 bits (150), Expect = 9e-12
 Identities = 20/78 (25%), Positives = 38/78 (48%), Gaps = 8/78 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
             K++IGGLP  + +  +++ +  +G ++   L          G+ F E+ D    D A+
Sbjct: 114 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 173

Query: 55  YELNGKSLLGERVTVEIA 72
             LNG  L  +++ V+ A
Sbjct: 174 AGLNGMQLGDKKLLVQRA 191

>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 = 46.9 bits (112), Expect = 1e-06
 Identities = 18/109 (16%), Positives = 35/109 (32%), Gaps = 11/109 (10%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVG----------EVCYADAHKRHRNEGVVEFESSSDMK 164
           RL V N+   ++ + + DF                   A    + +N   +EF S  +  
Sbjct: 6   RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65

Query: 165 KALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSS 213
           +A+   D     G+ +++          G S + S        +    S
Sbjct: 66  QAM-AFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDS 113

>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 = 93.4 bits (232), Expect = 6e-24
 Identities = 36/78 (46%), Positives = 47/78 (60%), Gaps = 3/78 (3%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN---GFGFVEFEDYRDADDAVYELNG 59
             KVY+G L     + +LE+    YG +R V +     GF FVEFED RDA DAV EL+G
Sbjct: 73  DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDG 132

Query: 60  KSLLGERVTVEIAKGIDR 77
           ++L G RV VE++ G  R
Sbjct: 133 RTLCGCRVRVELSNGEKR 150

>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 = 63.4 bits (154), Expect = 9e-13
 Identities = 29/136 (21%), Positives = 49/136 (36%), Gaps = 10/136 (7%)

Query: 56  ELNGKSLLGERVTVEI----AKGIDRSQERGRRGYGSYRAPPPRRGW------GHDRDDR 105
            LNGK+L GE  T  +    A+ + +         G +      + +       H     
Sbjct: 6   ILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHHHHM 65

Query: 106 YGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKK 165
           +      D ++ V NL +  +  +L+      G +      +       VEFE   D   
Sbjct: 66  HRDSCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAAD 125

Query: 166 ALDKLDNAELNGRRIR 181
           A+ +LD   L G R+R
Sbjct: 126 AVRELDGRTLCGCRVR 141

>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 = 91.6 bits (228), Expect = 7e-24
 Identities = 35/88 (39%), Positives = 47/88 (53%), Gaps = 5/88 (5%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-----GFGFVEFEDYRDADDAVYEL 57
             ++Y+G LP  +R +D+E     YG IRD+ LKN      F FVEFED RDA+DAVY  
Sbjct: 22  DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGR 81

Query: 58  NGKSLLGERVTVEIAKGIDRSQERGRRG 85
           +G    G R+ VE  +    +      G
Sbjct: 82  DGYDYDGYRLRVEFPRSGRGTGSGPSSG 109

>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 = 58.5 bits (142), Expect = 2e-11
 Identities = 27/105 (25%), Positives = 42/105 (40%), Gaps = 3/105 (2%)

Query: 95  RRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGV 154
                       GP   +D R+ V NL   +  +D++D   + G +   D   R      
Sbjct: 4   GSSGMSGGGVIRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPF 63

Query: 155 --VEFESSSDMKKALDKLDNAELNGRRIRLIEDKP-RGGGRGRSR 196
             VEFE   D + A+   D  + +G R+R+   +  RG G G S 
Sbjct: 64  AFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRSGRGTGSGPSS 108

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

 Score = 92.0 bits (229), Expect = 7e-23
 Identities = 39/192 (20%), Positives = 80/192 (41%), Gaps = 34/192 (17%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAVY 55
           ++VY+G + Y + E  + +    +G I+ + +  +       GF FVE+E    A  A+ 
Sbjct: 29  SRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALE 88

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHR 115
           ++N   L G  + V       R    G+                    D+     R+ +R
Sbjct: 89  QMNSVMLGGRNIKV------GRPSNIGQA---------------QPIIDQLAEEARAFNR 127

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHK-RHRNEGVVEFESSSDMKKALDKL 170
           + V ++   +S  D+K      G++  A    D    +H+  G +E+E +   + A+  +
Sbjct: 128 IYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSM 187

Query: 171 DNAELNGRRIRL 182
           +  +L G+ +R+
Sbjct: 188 NLFDLGGQYLRV 199

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

 Score = 58.9 bits (143), Expect = 1e-10
 Identities = 19/79 (24%), Positives = 39/79 (49%), Gaps = 10/79 (12%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---------KNGFGFVEFEDYRDADDA 53
             ++Y+  +   + + D++   + +G+I+   L         K G+GF+E+E  + + DA
Sbjct: 125 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHK-GYGFIEYEKAQSSQDA 183

Query: 54  VYELNGKSLLGERVTVEIA 72
           V  +N   L G+ + V  A
Sbjct: 184 VSSMNLFDLGGQYLRVGKA 202

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

 Score = 50.4 bits (121), Expect = 9e-08
 Identities = 15/120 (12%), Positives = 38/120 (31%), Gaps = 15/120 (12%)

Query: 101 DRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVV 155
               +         R+ V ++   +    ++      G +      +     +H+    V
Sbjct: 16  GSAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFV 75

Query: 156 EFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKS 215
           E+E     + AL+++++  L GR I++          GR  +         +    +   
Sbjct: 76  EYEVPEAAQLALEQMNSVMLGGRNIKV----------GRPSNIGQAQPIIDQLAEEARAF 125

>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 = 93.5 bits (233), Expect = 8e-23
 Identities = 30/185 (16%), Positives = 58/185 (31%), Gaps = 44/185 (23%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-GFGFVEFEDYRDADDAVYELNGKS 61
             K+ I GLP  V  +++   +  Y      + K  G  FV   +   A+ A+   +   
Sbjct: 22  RRKILIRGLPGDVTNQEVHDLLSDYELKYCFVDKYKGTAFVTLLNGEQAEAAINAFHQSR 81

Query: 62  LLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENL 121
           L    ++V++                                        +D  L V NL
Sbjct: 82  LRERELSVQLQ--------------------------------------PTDALLCVANL 103

Query: 122 SSRVSWQDLKDFMRQVGE-----VCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELN 176
              ++ Q  ++ +R  G      + Y++   + +  G  E+       +A   L    L 
Sbjct: 104 PPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLG 163

Query: 177 GRRIR 181
            R + 
Sbjct: 164 PRTLY 168

>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 = 85.0 bits (211), Expect = 1e-19
 Identities = 33/193 (17%), Positives = 63/193 (32%), Gaps = 42/193 (21%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KN-GFGFVEFEDYRDADDAV 54
              + +  LP  + ++  E+ V+ +G +    L       ++ G+GF E+     A  A 
Sbjct: 95  DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAK 154

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDH 114
            +L GK L    + V      D  Q                            P      
Sbjct: 155 SDLLGKPLGPRTLYVHWT---DAGQLT--------------------------PALLHSR 185

Query: 115 RLIVENLSSRVS-WQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDK 169
            L V+ L    +    L   +  V    +         + +   V+E+E++   ++A  +
Sbjct: 186 CLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQ 245

Query: 170 LDNAELNGRRIRL 182
            D   L G  +R+
Sbjct: 246 ADGLSLGGSHLRV 258

>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 = 48.4 bits (116), Expect = 7e-07
 Identities = 12/81 (14%), Positives = 33/81 (40%), Gaps = 4/81 (4%)

Query: 102 RDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAHKRHRNEGVVEFESS 160
           R +      R+  ++++  L   V+ Q++ D +     + C+ D   +++    V   + 
Sbjct: 11  RLEHTERQFRNRRKILIRGLPGDVTNQEVHDLLSDYELKYCFVD---KYKGTAFVTLLNG 67

Query: 161 SDMKKALDKLDNAELNGRRIR 181
              + A++    + L  R + 
Sbjct: 68  EQAEAAINAFHQSRLRERELS 88

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 90.9 bits (225), Expect = 2e-22
 Identities = 33/197 (16%), Positives = 70/197 (35%), Gaps = 20/197 (10%)

Query: 3   GTKVYIGGL-PYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELN 58
              + + GL    +    +      YG +  V     K G   VE  D    D A+  LN
Sbjct: 4   SPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLN 63

Query: 59  GKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLI- 117
              + G+++ V ++K   +      + YG        + +   R++R+  P ++    I 
Sbjct: 64  NNFMFGQKMNVCVSK---QPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQ 120

Query: 118 -------VENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSSDMKK 165
                    N    V+ ++  +   ++G                 + G++E++S SD  +
Sbjct: 121 HPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALE 180

Query: 166 ALDKLDNAELNGRRIRL 182
            L  L++ ++       
Sbjct: 181 TLGFLNHYQMKNPNGPY 197

>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 = 54.3 bits (130), Expect = 3e-09
 Identities = 12/79 (15%), Positives = 23/79 (29%), Gaps = 8/79 (10%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADD 52
                ++    P  V E +  +     G  R   +K           G +E++   DA +
Sbjct: 121 HPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALE 180

Query: 53  AVYELNGKSLLGERVTVEI 71
            +  LN   +         
Sbjct: 181 TLGFLNHYQMKNPNGPYPY 199

>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 = 46.2 bits (109), Expect = 2e-06
 Identities = 26/126 (20%), Positives = 50/126 (39%), Gaps = 5/126 (3%)

Query: 107 GPPTRSDHRLIVENLS-SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKK 165
           G  +     L+V  L  S+++   + +     G V      K      +VE      + +
Sbjct: 1   GADSP---VLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDR 57

Query: 166 ALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRS-KSRSRSRSSKSRSPRSRSKS 224
           A+  L+N  + G+++ +   K      G+S      S S K  S SR+++  +P   +K+
Sbjct: 58  AITHLNNNFMFGQKMNVCVSKQPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKN 117

Query: 225 GSPRKS 230
                S
Sbjct: 118 RIQHPS 123

>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 = 87.3 bits (217), Expect = 3e-22
 Identities = 23/91 (25%), Positives = 42/91 (46%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
             +++  L   V E  LEK    +G++  V     + F+ F++   A  A+ E+NGK L 
Sbjct: 12  KVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKDYAFIHFDERDGAVKAMEEMNGKDLE 71

Query: 64  GERVTVEIAKGIDRSQERGRRGYGSYRAPPP 94
           GE + +  AK  D+ ++  +    +   P  
Sbjct: 72  GENIEIVFAKPPDQKRKERKAQRQAASGPSS 102

>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 = 48.4 bits (116), Expect = 7e-08
 Identities = 19/92 (20%), Positives = 42/92 (45%), Gaps = 3/92 (3%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAE 174
            L V NL++ V+ + L+    Q G++      K+ ++   + F+      KA+++++  +
Sbjct: 13  VLFVRNLANTVTEEILEKAFSQFGKLERV---KKLKDYAFIHFDERDGAVKAMEEMNGKD 69

Query: 175 LNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKS 206
           L G  I ++  KP    R   ++    +   S
Sbjct: 70  LEGENIEIVFAKPPDQKRKERKAQRQAASGPS 101

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 87.6 bits (217), Expect = 2e-21
 Identities = 41/196 (20%), Positives = 74/196 (37%), Gaps = 20/196 (10%)

Query: 2   VGTKV-YIGGL-PYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYE 56
           +G  V  +  L P  V  + L      YG ++ V +   K     V+  D   A  A+  
Sbjct: 1   MGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSH 60

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSD--- 113
           LNG  L G+ + + ++K      +  +            + +G+    R+  P   +   
Sbjct: 61  LNGHKLHGKPIRITLSK-----HQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQN 115

Query: 114 -----HRLIVENLSSRVSWQDLKD-FMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKAL 167
                  L + N+   VS +DLK  F    G V      ++ R   +++  S  +  +AL
Sbjct: 116 IFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQAL 175

Query: 168 DKLDNAEL-NGRRIRL 182
             L N +L     +R+
Sbjct: 176 IDLHNHDLGENHHLRV 191

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 58.8 bits (142), Expect = 9e-11
 Identities = 26/136 (19%), Positives = 49/136 (36%), Gaps = 16/136 (11%)

Query: 112 SDHRLIVENLS-SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL 170
            +  L+V NL+  RV+ Q L       G+V         +   +V+    +  + A+  L
Sbjct: 2   GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHL 61

Query: 171 DNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKSRSPRSRSKSGSPRKS 230
           +  +L+G+ IR+               + S+ ++    R         +    S   R  
Sbjct: 62  NGHKLHGKPIRI---------------TLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFK 106

Query: 231 KSKAKSVSRSPSPSKT 246
           K  +K+      PS T
Sbjct: 107 KPGSKNFQNIFPPSAT 122

>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 = 88.5 bits (220), Expect = 5e-21
 Identities = 29/211 (13%), Positives = 64/211 (30%), Gaps = 52/211 (24%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN------GFGFVEFEDYRDADDAVYE 56
            T V +  LP    +  + K+ K  G I  V + +       F  +EF  Y  A  A+ +
Sbjct: 41  LTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITK 100

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRL 116
            +   +    + V                                           +  L
Sbjct: 101 THKV-VGQNEIIVSHLT---------------------------------------ECTL 120

Query: 117 IVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSSDMKKALDKLD 171
            + N     + ++++D ++ +  V  +           R    ++  S  D +  ++KL+
Sbjct: 121 WMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLN 180

Query: 172 NAELNGRRIRL-IEDKPRGGGRGRSRSSSSR 201
             ++ G  +   + +      R  S +   R
Sbjct: 181 GLKIEGYTLVTKVSNPLEKSKRTDSATLEGR 211

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

 Score = 76.6 bits (189), Expect = 1e-16
 Identities = 27/194 (13%), Positives = 69/194 (35%), Gaps = 41/194 (21%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIR-DVILKN-------GFGFVEFEDYRDADDAVY 55
             +++   P    +R++   ++    +   + L +        F +++     DA   V 
Sbjct: 118 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVE 177

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHR 115
           +LNG  + G  +  +++  +++S+                         R    T     
Sbjct: 178 KLNGLKIEGYTLVTKVSNPLEKSK-------------------------RTDSATLEGRE 212

Query: 116 LIVENLSSRVS-WQDLKDFMRQVGEV------CYADAHKRHRNEGVVEFESSSDMKKALD 168
           +++ NLS+ +     L++     G +           H  +     + FE+    ++AL 
Sbjct: 213 IMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL- 271

Query: 169 KLDNAELNGRRIRL 182
           +++ + L  R I +
Sbjct: 272 QMNRSLLGNREISV 285

>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 = 57.7 bits (140), Expect = 6e-10
 Identities = 18/81 (22%), Positives = 35/81 (43%), Gaps = 11/81 (13%)

Query: 3   GTKVYIGGLPYGVR-ERDLEKFVKGYGRIRDVIL---------KNGFGFVEFEDYRDADD 52
           G ++ I  L   +  E  L +  +G+G I  + +          N   F+ FE+   A+ 
Sbjct: 210 GREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAER 269

Query: 53  AVYELNGKSLLGERVTVEIAK 73
           A+ ++N   L    ++V +A 
Sbjct: 270 AL-QMNRSLLGNREISVSLAD 289

>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 = 51.5 bits (124), Expect = 6e-08
 Identities = 14/94 (14%), Positives = 31/94 (32%), Gaps = 6/94 (6%)

Query: 92  PPPRRGWGHDRDDRYGPPTRSDHR-LIVENLSSRVSWQDLKDFMRQVGEV--C-YADAHK 147
            P   G    +          +   ++V+NL    +   +  + +  G +     AD+ K
Sbjct: 20  SPAAAGLTS-KKANEALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLK 78

Query: 148 RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
           ++     +EF        A+ K  +  +    I 
Sbjct: 79  KNFRFARIEFARYDGALAAITKT-HKVVGQNEII 111

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

 Score = 84.3 bits (209), Expect = 6e-21
 Identities = 35/108 (32%), Positives = 49/108 (45%), Gaps = 7/108 (6%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------GFGFVEFEDYRDADDAVY 55
             K++IGGL     E+ L+     +G I +V+L         GF F+ FE+  DA +A  
Sbjct: 7   PGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAK 66

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRD 103
           ++NGKSL G+ + VE AK         RR   S R   P     H   
Sbjct: 67  DMNGKSLHGKAIKVEQAKKPSFQSGGRRRPPASSRNRSPSGSLEHHHH 114

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

 Score = 56.6 bits (137), Expect = 1e-10
 Identities = 23/102 (22%), Positives = 44/102 (43%), Gaps = 4/102 (3%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKL 170
           +L +  L+   + + LK    + G +       D   + R    + FE+ +D K A   +
Sbjct: 9   KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDM 68

Query: 171 DNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRS 212
           +   L+G+ I++ + K      G  R   + SR++S S S  
Sbjct: 69  NGKSLHGKAIKVEQAKKPSFQSGGRRRPPASSRNRSPSGSLE 110

>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 = 83.8 bits (208), Expect = 4e-20
 Identities = 26/195 (13%), Positives = 63/195 (32%), Gaps = 51/195 (26%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------------GFGFVEFEDYRDAD 51
           ++Y+G +P+G+ E  +  F     R+  +                  F F+EF    +  
Sbjct: 6   RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 65

Query: 52  DAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTR 111
            A+   +G    G+ + +       R  +                            P  
Sbjct: 66  QAM-AFDGIIFQGQSLKI------RRPHDY--------------------------QPLP 92

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKA 166
             H+L +  L + ++   +K+ +   G +   +  K       +     E+   +   +A
Sbjct: 93  GAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQA 152

Query: 167 LDKLDNAELNGRRIR 181
           +  L+  +L  +++ 
Sbjct: 153 IAGLNGMQLGDKKLL 167

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 63.4 bits (155), Expect = 1e-12
 Identities = 20/78 (25%), Positives = 38/78 (48%), Gaps = 8/78 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
             K++IGGLP  + +  +++ +  +G ++   L          G+ F E+ D    D A+
Sbjct: 94  AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAI 153

Query: 55  YELNGKSLLGERVTVEIA 72
             LNG  L  +++ V+ A
Sbjct: 154 AGLNGMQLGDKKLLVQRA 171

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 48.4 bits (116), Expect = 2e-07
 Identities = 15/80 (18%), Positives = 30/80 (37%), Gaps = 11/80 (13%)

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEV----------CYADAHKRHRNEGVVEFESSS 161
           S  RL V N+   ++ + + DF      +            A    + +N   +EF S  
Sbjct: 3   SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62

Query: 162 DMKKALDKLDNAELNGRRIR 181
           +  +A+   D     G+ ++
Sbjct: 63  ETTQAM-AFDGIIFQGQSLK 81

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Length = 229

 Score = 82.4 bits (203), Expect = 4e-19
 Identities = 43/192 (22%), Positives = 74/192 (38%), Gaps = 15/192 (7%)

Query: 3   GTKVYIGGL-PYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELN 58
            + + +  L P  V  + L      YG ++ V +   K     V+  D   A  A+  LN
Sbjct: 34  NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLN 93

Query: 59  GKSLLGERVTVEIAKG----IDRSQERGRRGYGSYRAPPPRR--GWGHDRDDRYGPPTRS 112
           G  L G+ + + ++K     + R  +  +     Y   P  R    G        PP+  
Sbjct: 94  GHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPS-- 151

Query: 113 DHRLIVENLSSRVSWQDLKD-FMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLD 171
              L + N+   VS +DLK  F    G V      ++ R   +++  S  +  +AL  L 
Sbjct: 152 -ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLH 210

Query: 172 NAEL-NGRRIRL 182
           N +L     +R+
Sbjct: 211 NHDLGENHHLRV 222

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Length = 229

 Score = 58.5 bits (141), Expect = 2e-10
 Identities = 32/168 (19%), Positives = 58/168 (34%), Gaps = 21/168 (12%)

Query: 82  GRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLS-SRVSWQDLKDFMRQVGEV 140
               +       PR G    R    G     +  L+V NL+  RV+ Q L       G+V
Sbjct: 4   SHHHHHHSSGLVPR-GSHMGRIAIPGLAGAGNSVLLVSNLNPERVTPQSLFILFGVYGDV 62

Query: 141 CYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSS 200
                    +   +V+    +  + A+  L+  +L+G+ IR+                 +
Sbjct: 63  QRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRI-----------------T 105

Query: 201 RSRSKSRSRSRSSKSRSPRSRSKSGSP--RKSKSKAKSVSRSPSPSKT 246
            S+ ++    R  +     ++    SP  R  K  +K+      PS T
Sbjct: 106 LSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSAT 153

>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 = 78.1 bits (193), Expect = 6e-19
 Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 3/85 (3%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRD--VILKNGFGFVEFEDYRDADDAVYELNGKS 61
           K+YIG L   V   DL +            V+LK+G+ FV++ D   A  A+  L+GK 
Sbjct: 9  NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKV 68

Query: 62 -LLGERVTVEIAKGIDRSQERGRRG 85
           L G+ + V+ +            G
Sbjct: 69 ELHGKIMEVDYSVSKKLRSSGPSSG 93

>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 = 50.7 bits (122), Expect = 1e-08
 Identities = 17/88 (19%), Positives = 34/88 (38%), Gaps = 5/88 (5%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLD-N 172
           ++L + NLS  V+  DL+                       V++   +   +A++ L   
Sbjct: 9   NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQV-LLKSGYAFVDYPDQNWAIRAIETLSGK 67

Query: 173 AELNGRRIRLIEDKPRGGGRGRSRSSSS 200
            EL+G+ + +     +   + RS   SS
Sbjct: 68  VELHGKIMEVDYSVSK---KLRSSGPSS 92

>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 = 76.2 bits (188), Expect = 5e-18
 Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 3/84 (3%)

Query: 4  TKVYIGGLPYGVRERDLEK-FVK-GYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKS 61
            +Y+  L     E  +EK F     G +  V     + FV F +  DA +A+  LNGK 
Sbjct: 16 KILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKV 75

Query: 62 LLGERVTVEIAKGIDRSQERGRRG 85
          L G  + V +AK +D+    G   
Sbjct: 76 LDGSPIEVTLAKPVDK-DSSGPSS 98

>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 = 50.0 bits (120), Expect = 2e-08
 Identities = 18/82 (21%), Positives = 30/82 (36%), Gaps = 1/82 (1%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL 175
           L V NL    S + ++     +         K+ R+   V F +  D  +A+  L+   L
Sbjct: 18  LYVRNLMLSTSEEMIEKEFNNIKPGAVERV-KKIRDYAFVHFSNREDAVEAMKALNGKVL 76

Query: 176 NGRRIRLIEDKPRGGGRGRSRS 197
           +G  I +   KP         S
Sbjct: 77  DGSPIEVTLAKPVDKDSSGPSS 98

>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 = 75.8 bits (187), Expect = 5e-18
 Identities = 22/85 (25%), Positives = 40/85 (47%), Gaps = 2/85 (2%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAVYELNGK 60
           +++++G LP  + E ++ K  + YG+  +V +    GFGF+  E    A+ A  EL+  
Sbjct: 15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNM 74

Query: 61 SLLGERVTVEIAKGIDRSQERGRRG 85
           L G+++ V  A            G
Sbjct: 75 PLRGKQLRVRFACHSASLTSGPSSG 99

>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 = 48.8 bits (117), Expect = 6e-08
 Identities = 19/92 (20%), Positives = 39/92 (42%), Gaps = 2/92 (2%)

Query: 107 GPPTRSDH-RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKK 165
           G  T +   RL V NL   ++ ++++    + G+      H + +  G +  E+ +  + 
Sbjct: 8   GEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIH-KDKGFGFIRLETRTLAEI 66

Query: 166 ALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           A  +LDN  L G+++R+              S
Sbjct: 67  AKVELDNMPLRGKQLRVRFACHSASLTSGPSS 98

>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 = 78.6 bits (194), Expect = 2e-17
 Identities = 44/192 (22%), Positives = 70/192 (36%), Gaps = 45/192 (23%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAVYELNGKS 61
            ++++G LP  + E D ++  + YG   +V +    GFGF+  E    A+ A  EL+G  
Sbjct: 23  CRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTI 82

Query: 62  LLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENL 121
           L    + +  A                                           L V+NL
Sbjct: 83  LKSRPLRIRFA--------------------------------------THGAALTVKNL 104

Query: 122 SSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKLDNAE-LN 176
           S  VS + L+    Q G V  A    D   R   +G VEF +    +KAL++  +   L 
Sbjct: 105 SPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLL 164

Query: 177 GRRIRLIEDKPR 188
               R +  +P 
Sbjct: 165 TTTPRPVIVEPM 176

>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 = 59.7 bits (145), Expect = 9e-11
 Identities = 24/110 (21%), Positives = 35/110 (31%), Gaps = 17/110 (15%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVY 55
           G  + +  L   V    LE+    +G +   ++         G GFVEF     A  A+ 
Sbjct: 96  GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALE 155

Query: 56  ELNGKSLLGER----VTVEIAKGIDRSQERGRR------GYGSYRAPPPR 95
                + L       V VE  +  D       +       Y   R  PPR
Sbjct: 156 RCGDGAFLLTTTPRPVIVEPMEQFDDEDGLPEKLMQKTQQYHKEREQPPR 205

>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 = 49.3 bits (118), Expect = 3e-07
 Identities = 20/91 (21%), Positives = 32/91 (35%), Gaps = 6/91 (6%)

Query: 92  PPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-KRHR 150
                                  RL V NL + ++ +D K    + GE   ++    R R
Sbjct: 4   FTIDIKS---FLKPGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEP--SEVFINRDR 58

Query: 151 NEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
             G +  ES +  + A  +LD   L  R +R
Sbjct: 59  GFGFIRLESRTLAEIAKAELDGTILKSRPLR 89

>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 = 76.5 bits (189), Expect = 2e-17
 Identities = 28/198 (14%), Positives = 62/198 (31%), Gaps = 47/198 (23%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN---------GFGFVEFEDYRDADDA 53
            K+++G +P    E+DL +  + YG + ++ +L++         G  FV F   + A +A
Sbjct: 4   IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63

Query: 54  VYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSD 113
              L+   +L         K  D  +                                  
Sbjct: 64  QNALHNMKVLPGMHHPIQMKPADSEKNNAVED---------------------------- 95

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDK 169
            +L +  +S + +  D++      G++             R    V F + +  + A+  
Sbjct: 96  RKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIK- 154

Query: 170 LDNAELNGRRIRLIEDKP 187
                ++  +       P
Sbjct: 155 ----AMHQAQTMEGCSSP 168

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 59.2 bits (144), Expect = 4e-11
 Identities = 15/68 (22%), Positives = 27/68 (39%), Gaps = 7/68 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN------GFGFVEFEDYRDADDAVY 55
             K++IG +     E D+      +G+I +  IL+       G  FV F     A  A+ 
Sbjct: 95  DRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIK 154

Query: 56  ELNGKSLL 63
            ++    +
Sbjct: 155 AMHQAQTM 162

>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 = 42.6 bits (101), Expect = 3e-05
 Identities = 17/92 (18%), Positives = 33/92 (35%), Gaps = 8/92 (8%)

Query: 112 SDHR-LIVENLSSRVSWQDLKDFMRQVGEVC-------YADAHKRHRNEGVVEFESSSDM 163
           SD   + V  +    S +DL++   Q G V         +    + +    V F +    
Sbjct: 1   SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAA 60

Query: 164 KKALDKLDNAELNGRRIRLIEDKPRGGGRGRS 195
            +A + L N ++       I+ KP    +  +
Sbjct: 61  LEAQNALHNMKVLPGMHHPIQMKPADSEKNNA 92

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

 Score = 74.4 bits (183), Expect = 3e-17
 Identities = 21/100 (21%), Positives = 36/100 (36%), Gaps = 8/100 (8%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAV 54
             +V    L   VRE  L+   + YG + +V IL +       G   V F   R A + V
Sbjct: 6   LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETV 65

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPP 94
             L+  S++G  +  ++     +  +           P  
Sbjct: 66  KNLHLTSVMGNIIHAQLDIKGQQRMKYYELIVNGSYTPQT 105

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

 Score = 59.3 bits (144), Expect = 1e-11
 Identities = 20/107 (18%), Positives = 34/107 (31%), Gaps = 8/107 (7%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFESSS 161
           G        +    L+  V    LKD  R+ GEV           ++H     V F S+ 
Sbjct: 2   GQIPLK--EVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTR 59

Query: 162 DMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRS 208
             K+ +  L    + G  I   +   +G  R +            ++
Sbjct: 60  GAKETVKNLHLTSVMGNIIH-AQLDIKGQQRMKYYELIVNGSYTPQT 105

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

 Score = 73.4 bits (181), Expect = 4e-17
 Identities = 26/91 (28%), Positives = 38/91 (41%), Gaps = 8/91 (8%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV 54
              + +  L Y      L +  + YGR+ DV +          GF FV F D RDA DA 
Sbjct: 13  MITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAE 72

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
             ++G  L G  + V++A+   R       G
Sbjct: 73  AAMDGAELDGRELRVQVARYGRRDLSGPSSG 103

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

 Score = 52.2 bits (126), Expect = 3e-09
 Identities = 24/98 (24%), Positives = 35/98 (35%), Gaps = 5/98 (5%)

Query: 105 RYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFES 159
             GP       L V+NL+ R S   L+    + G V      +       R    V F  
Sbjct: 5   SSGPDVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHD 64

Query: 160 SSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
             D + A   +D AEL+GR +R+   +          S
Sbjct: 65  RRDAQDAEAAMDGAELDGRELRVQVARYGRRDLSGPSS 102

>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 = 71.4 bits (176), Expect = 2e-16
 Identities = 21/82 (25%), Positives = 40/82 (48%), Gaps = 9/82 (10%)

Query: 1  MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN---------GFGFVEFEDYRDAD 51
          M  TKV+IG L   V +  + +    YG+I+ + +           G+ +VEFE+  +A+
Sbjct: 2  MKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAE 61

Query: 52 DAVYELNGKSLLGERVTVEIAK 73
           A+  ++G  + G+ +T     
Sbjct: 62 KALKHMDGGQIDGQEITATAVL 83

>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 = 53.7 bits (130), Expect = 7e-10
 Identities = 14/85 (16%), Positives = 33/85 (38%), Gaps = 6/85 (7%)

Query: 110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK------RHRNEGVVEFESSSDM 163
           +    ++ +  L+  V+   + +     G++   D           +    VEFE+  + 
Sbjct: 1   SMKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEA 60

Query: 164 KKALDKLDNAELNGRRIRLIEDKPR 188
           +KAL  +D  +++G+ I        
Sbjct: 61  EKALKHMDGGQIDGQEITATAVLAP 85

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 71.1 bits (175), Expect = 3e-16
 Identities = 20/78 (25%), Positives = 32/78 (41%), Gaps = 8/78 (10%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV 54
           + VY+  LP+ +   DL +    YG++  V +          G  F+ F D   A +  
Sbjct: 16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCT 75

Query: 55 YELNGKSLLGERVTVEIA 72
            +N K L G  +   IA
Sbjct: 76 RAINNKQLFGRVIKASIA 93

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 49.1 bits (118), Expect = 3e-08
 Identities = 16/80 (20%), Positives = 29/80 (36%), Gaps = 5/80 (6%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSS 161
           G    S   + V NL   ++  DL     + G+V      K     + +    + F    
Sbjct: 10  GGLAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKD 69

Query: 162 DMKKALDKLDNAELNGRRIR 181
             +     ++N +L GR I+
Sbjct: 70  SAQNCTRAINNKQLFGRVIK 89

>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 = 70.5 bits (173), Expect = 9e-16
 Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 5/88 (5%)

Query: 2  VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-----GFGFVEFEDYRDADDAVYE 56
          V   +YI  LPY +   ++      YG IR + + N     G  +V +ED  DA +AV  
Sbjct: 7  VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDH 66

Query: 57 LNGKSLLGERVTVEIAKGIDRSQERGRR 84
          L+G ++    + V         Q+   +
Sbjct: 67 LSGFNVSNRYLVVLYYNANRAFQKMDTK 94

>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 = 50.8 bits (122), Expect = 1e-08
 Identities = 15/86 (17%), Positives = 33/86 (38%), Gaps = 2/86 (2%)

Query: 109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK--RHRNEGVVEFESSSDMKKA 166
           P   +  L + NL  +++ +++ D   + G +           R    V +E   D K A
Sbjct: 4   PPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNA 63

Query: 167 LDKLDNAELNGRRIRLIEDKPRGGGR 192
           +D L    ++ R + ++        +
Sbjct: 64  VDHLSGFNVSNRYLVVLYYNANRAFQ 89

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 70.0 bits (172), Expect = 9e-16
 Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 6/89 (6%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN------GFGFVEFEDYRDADDAVYE 56
             ++++  +P+  R+ DL +    +G+I DV +        GFGFV FE+  DAD A  +
Sbjct: 15  PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREK 74

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRG 85
           L+G  + G ++ V  A     +      G
Sbjct: 75  LHGTVVEGRKIEVNNATARVMTNSGPSSG 103

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 51.5 bits (124), Expect = 6e-09
 Identities = 23/93 (24%), Positives = 37/93 (39%), Gaps = 3/93 (3%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK---RHRNEGVVEFESSSDMK 164
               +  RL V N+  R    DL+    Q G++   +        +  G V FE+S+D  
Sbjct: 10  ESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADAD 69

Query: 165 KALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           +A +KL    + GR+I +     R        S
Sbjct: 70  RAREKLHGTVVEGRKIEVNNATARVMTNSGPSS 102

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 70.0 bits (172), Expect = 1e-15
 Identities = 24/93 (25%), Positives = 38/93 (40%), Gaps = 8/93 (8%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
             V++G +PY   E  L+      G +    L          G+GF E++D   A  A+ 
Sbjct: 9   RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRGYGS 88
            LNG+   G  + V+ A      +E    G G+
Sbjct: 69  NLNGREFSGRALRVDNAASEKNKEELKSLGTGA 101

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 43.8 bits (104), Expect = 4e-06
 Identities = 18/85 (21%), Positives = 32/85 (37%), Gaps = 9/85 (10%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRNEGVVEFESSSDM 163
           RS   + V N+    + + LKD   +VG V              + +  G  E++     
Sbjct: 6   RSLRSVFVGNIPYEATEEQLKDIFSEVGPV--VSFRLVYDRETGKPKGYGFCEYQDQETA 63

Query: 164 KKALDKLDNAELNGRRIRLIEDKPR 188
             A+  L+  E +GR +R+      
Sbjct: 64  LSAMRNLNGREFSGRALRVDNAASE 88

>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 = 69.6 bits (171), Expect = 1e-15
 Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 4/75 (5%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNG--FGFVEFEDYRDADDAVYELNGKS 61
          T++++GGL        L +    +G IR +    G  F ++++E    A  A  ++ G  
Sbjct: 18 TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFP 77

Query: 62 LLGE--RVTVEIAKG 74
          L G   R+ V+ AK 
Sbjct: 78 LGGPDRRLRVDFAKS 92

>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 = 46.1 bits (110), Expect = 4e-07
 Identities = 19/75 (25%), Positives = 28/75 (37%), Gaps = 4/75 (5%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKAL 167
            PT    RL V  L    S   L     + G +   D H +  +   +++ES    + A 
Sbjct: 15  NPTT---RLWVGGLGPNTSLAALAREFDRFGSIRTID-HVKGDSFAYIQYESLDAAQAAC 70

Query: 168 DKLDNAELNGRRIRL 182
            K+    L G   RL
Sbjct: 71  AKMRGFPLGGPDRRL 85

>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 = 69.7 bits (171), Expect = 2e-15
 Identities = 24/109 (22%), Positives = 40/109 (36%), Gaps = 7/109 (6%)

Query: 87  GSYRAPPPRRGWGHDR---DDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA 143
           G  +       W HD        G    +  +L+V NL   VS  D+++   + G +  A
Sbjct: 6   GGQQMGRDPDKWQHDLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKA 65

Query: 144 DAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
                   R      V FE  +D  KA+ +     L+GR + +     +
Sbjct: 66  AVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQ 114

>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 = 59.3 bits (144), Expect = 2e-11
 Identities = 19/87 (21%), Positives = 36/87 (41%), Gaps = 8/87 (9%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVY 55
           G K+ +  L +GV + D+++    +G ++   +         G   V FE   DA  A+ 
Sbjct: 35  GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMK 94

Query: 56  ELNGKSLLGERVTVEIAKG-IDRSQER 81
           +  G  L G  + +++    ID     
Sbjct: 95  QYKGVPLDGRPMDIQLVASQIDLEHHH 121

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

 Score = 68.8 bits (169), Expect = 2e-15
 Identities = 26/90 (28%), Positives = 39/90 (43%), Gaps = 8/90 (8%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
             +Y+GGL   V ++ L      +G I D+ +          GF FVEFE   DA  A+ 
Sbjct: 13  RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 72

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
            +N   L G  + V +AK +   +     G
Sbjct: 73  NMNESELFGRTIRVNLAKPMRIKESGPSSG 102

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

 Score = 55.7 bits (135), Expect = 2e-10
 Identities = 25/95 (26%), Positives = 38/95 (40%), Gaps = 9/95 (9%)

Query: 110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRNEGVVEFESSSD 162
             +   L V  L+  V  + L       G++   D         ++HR    VEFE + D
Sbjct: 9   ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDI--TDIQIPLDYETEKHRGFAFVEFELAED 66

Query: 163 MKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
              A+D ++ +EL GR IR+   KP         S
Sbjct: 67  AAAAIDNMNESELFGRTIRVNLAKPMRIKESGPSS 101

>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 = 70.7 bits (174), Expect = 3e-15
 Identities = 37/193 (19%), Positives = 64/193 (33%), Gaps = 45/193 (23%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAV 54
            T + +  LP  + +R+L    +  G I    I+++       G+ FV+F    D+  A+
Sbjct: 3   NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAI 62

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDH 114
             LNG ++  +R+ V                  SY  P                    D 
Sbjct: 63  KVLNGITVRNKRLKV------------------SYARPGGES--------------IKDT 90

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSSDMKKALDK 169
            L V NL   ++   L     + G +            R R    V +    + ++A+  
Sbjct: 91  NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISA 150

Query: 170 LDNAELNGRRIRL 182
           L+N    G    L
Sbjct: 151 LNNVIPEGGSQPL 163

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 51.4 bits (124), Expect = 2e-08
 Identities = 17/83 (20%), Positives = 35/83 (42%), Gaps = 5/83 (6%)

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFESSSDMKKA 166
           S+  LIV  L   ++ ++L    R +G +                   V+F S  D ++A
Sbjct: 2   SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 61

Query: 167 LDKLDNAELNGRRIRLIEDKPRG 189
           +  L+   +  +R+++   +P G
Sbjct: 62  IKVLNGITVRNKRLKVSYARPGG 84

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 68.7 bits (168), Expect = 3e-15
 Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 3/75 (4%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN---GFGFVEFEDYRDADDAVYELNG 59
             VY+G LP   R  DL++ ++  G +   +         F+ + D   A  AV  L G
Sbjct: 19 AADVYVGNLPRDARVSDLKRALRELGSVPLRLTWQGPRRRAFLHYPDSAAAQQAVSCLQG 78

Query: 60 KSLLGERVTVEIAKG 74
            L  + + V +A+ 
Sbjct: 79 LRLGTDTLRVALARQ 93

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 53.3 bits (128), Expect = 1e-09
 Identities = 17/98 (17%), Positives = 33/98 (33%), Gaps = 4/98 (4%)

Query: 91  APPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHR 150
                 G G    +           + V NL       DLK  +R++G V      +  R
Sbjct: 1   GSSGSSGPGSPPGE----GAPLAADVYVGNLPRDARVSDLKRALRELGSVPLRLTWQGPR 56

Query: 151 NEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
               + +  S+  ++A+  L    L    +R+   + +
Sbjct: 57  RRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQQ 94

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 68.2 bits (167), Expect = 3e-15
 Identities = 12/71 (16%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYG-RIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL 62
          + + +  LP     +++   +K Y  +   V       FV   +   A +A+   +  S 
Sbjct: 6  SGILVKNLPQDSNCQEVHDLLKDYDLKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSF 65

Query: 63 LGERVTVEIAK 73
           G+ + V++  
Sbjct: 66 RGKDLIVQLQP 76

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 50.1 bits (120), Expect = 1e-08
 Identities = 15/85 (17%), Positives = 34/85 (40%), Gaps = 5/85 (5%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVG-EVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
            ++V+NL    + Q++ D ++    + CY D   R++    V   +    + A+      
Sbjct: 7   GILVKNLPQDSNCQEVHDLLKDYDLKYCYVD---RNKRTAFVTLLNGEQAQNAIQMFHQY 63

Query: 174 ELNGRRIRLIEDKPRGGGRGRSRSS 198
              G+ +  ++ +P         SS
Sbjct: 64  SFRGKDLI-VQLQPTDALLCSGPSS 87

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 68.4 bits (168), Expect = 4e-15
 Identities = 30/89 (33%), Positives = 49/89 (55%), Gaps = 8/89 (8%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
           K+++GGL +   E+ LE+    YG+I +V++          GFGFV FE+  DA DA+  
Sbjct: 14  KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 73

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRG 85
           +NGKS+ G ++ V+ A     ++     G
Sbjct: 74  MNGKSVDGRQIRVDQAGKSSDNRSGPSSG 102

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 51.1 bits (123), Expect = 8e-09
 Identities = 22/92 (23%), Positives = 41/92 (44%), Gaps = 9/92 (9%)

Query: 113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRNEGVVEFESSSDMKK 165
           + +L V  LS   + Q L+    + G++  ++         +R R  G V FE+  D K 
Sbjct: 12  EGKLFVGGLSFDTNEQSLEQVFSKYGQI--SEVVVVKDRETQRSRGFGFVTFENIDDAKD 69

Query: 166 ALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           A+  ++   ++GR+IR+ +       R    S
Sbjct: 70  AMMAMNGKSVDGRQIRVDQAGKSSDNRSGPSS 101

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

 Score = 68.1 bits (167), Expect = 4e-15
 Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 2/72 (2%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-GFGFVEFEDYRDADDAVYELNGKS 61
          T  YIG +P+   E DL    + +G I D       G  F++++ +  A   +  L    
Sbjct: 28 TTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKGCCFIKYDTHEQAAVCIVALANFP 87

Query: 62 LLGERVTVEIAK 73
            G  +     K
Sbjct: 88 FQGRNLRTGWGK 99

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

 Score = 53.5 bits (129), Expect = 1e-09
 Identities = 18/104 (17%), Positives = 34/104 (32%), Gaps = 3/104 (2%)

Query: 85  GYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYAD 144
           G  +   PP       D   R  PP  +     + N+    +  DL    +  G +    
Sbjct: 1   GSQTIGLPPQVNPQAVDHIIRSAPPRVT--TAYIGNIPHFATEADLIPLFQNFGFILDFK 58

Query: 145 AHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
            +   +    +++++       +  L N    GR +R    K R
Sbjct: 59  HYP-EKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGKER 101

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

 Score = 68.1 bits (167), Expect = 5e-15
 Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 13/90 (14%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVY 55
             K++I GLP+   + +LE+  K +G ++D+ L         G  +VE+E+   A  AV 
Sbjct: 17  KHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVM 76

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
           +++G ++    + V I+            G
Sbjct: 77  KMDGMTIKENIIKVAISN------SGPSSG 100

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

 Score = 54.6 bits (132), Expect = 4e-10
 Identities = 14/85 (16%), Positives = 34/85 (40%), Gaps = 4/85 (4%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDM 163
             +   H+L +  L    + ++L++  +  G V       +   + +    VE+E+ S  
Sbjct: 12  STSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQA 71

Query: 164 KKALDKLDNAELNGRRIRLIEDKPR 188
            +A+ K+D   +    I++      
Sbjct: 72  SQAVMKMDGMTIKENIIKVAISNSG 96

>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 = 67.6 bits (166), Expect = 5e-15
 Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 8/78 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
            +Y+GGL   V ++ L      +G I D+ +          GF FVEFE   DA  A+ 
Sbjct: 8  RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 67

Query: 56 ELNGKSLLGERVTVEIAK 73
           +N   L G  + V +AK
Sbjct: 68 NMNESELFGRTIRVNLAK 85

>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 = 58.3 bits (142), Expect = 1e-11
 Identities = 22/80 (27%), Positives = 33/80 (41%), Gaps = 5/80 (6%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSS 161
           G    +   L V  L+  V  + L       G++            +HR    VEFE + 
Sbjct: 1   GSMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAE 60

Query: 162 DMKKALDKLDNAELNGRRIR 181
           D   A+D ++ +EL GR IR
Sbjct: 61  DAAAAIDNMNESELFGRTIR 80

>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 = 68.6 bits (168), Expect = 7e-15
 Identities = 27/103 (26%), Positives = 49/103 (47%), Gaps = 8/103 (7%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
           G  +++ G+     E D+      YG I+++ L          G+  VE+E Y++A  A+
Sbjct: 22  GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 81

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRG 97
             LNG+ L+G+ ++V+        + + R G    R+P  RR 
Sbjct: 82  EGLNGQDLMGQPISVDWCFVRGPPKGKRRGGRRRSRSPDRRRR 124

>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 = 57.0 bits (138), Expect = 1e-10
 Identities = 29/119 (24%), Positives = 52/119 (43%), Gaps = 11/119 (9%)

Query: 101 DRDDRYGPPTRSDH--RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRN 151
           ++D     P RS     L V  +    + +D+ D   + GE+   + H          + 
Sbjct: 8   EQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEI--KNIHLNLDRRTGYLKG 65

Query: 152 EGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRS 210
             +VE+E+  + + A++ L+  +L G+ I +     RG  +G+ R    RSRS  R R 
Sbjct: 66  YTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFVRGPPKGKRRGGRRRSRSPDRRRR 124

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 68.7 bits (169), Expect = 1e-14
 Identities = 37/189 (19%), Positives = 71/189 (37%), Gaps = 42/189 (22%)

Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN------GFGFVEFEDYRDADDAVYELN 58
           +Y+G L   + E  L+++ +  G I ++ I+ +       + FVE+    DA+ A+  LN
Sbjct: 3   LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLN 62

Query: 59  GKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIV 118
           GK +    V +      + + +  +                          +     L V
Sbjct: 63  GKQIENNIVKI------NWAFQSQQS------------------------SSDDTFNLFV 92

Query: 119 ENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
            +L+  V  + L++  +                   R  G V F S  D + A+D +   
Sbjct: 93  GDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQ 152

Query: 174 ELNGRRIRL 182
           +LNGR +R+
Sbjct: 153 DLNGRPLRI 161

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 53.3 bits (129), Expect = 5e-09
 Identities = 17/79 (21%), Positives = 32/79 (40%), Gaps = 8/79 (10%)

Query: 2   VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDA 53
               +++G L   V +  L    K +       ++ +       G+GFV F    DA +A
Sbjct: 86  DTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNA 145

Query: 54  VYELNGKSLLGERVTVEIA 72
           +  + G+ L G  + +  A
Sbjct: 146 MDSMQGQDLNGRPLRINWA 164

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 66.8 bits (164), Expect = 1e-14
 Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 3/89 (3%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK---RHRNEGVVEFESSSDMK 164
             +    ++ V NL    +W+ LKD   + G V YAD      + +  GVV+FES    +
Sbjct: 3   SGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAE 62

Query: 165 KALDKLDNAELNGRRIRLIEDKPRGGGRG 193
           +A   ++  +L+GR I +  D+   G   
Sbjct: 63  RACRMMNGMKLSGREIDVRIDRNASGPSS 91

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 61.1 bits (149), Expect = 1e-12
 Identities = 22/89 (24%), Positives = 38/89 (42%), Gaps = 10/89 (11%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIR--DVILKN----GFGFVEFEDYRDADDAVYE 56
            ++++  LP+    + L+      G +   D+ ++N    G G V+FE    A+ A   
Sbjct: 8  ACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRM 67

Query: 57 LNGKSLLGERVTVEIAKGIDRSQERGRRG 85
          +NG  L G  + V     IDR+      G
Sbjct: 68 MNGMKLSGREIDV----RIDRNASGPSSG 92

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

 Score = 66.5 bits (163), Expect = 2e-14
 Identities = 26/79 (32%), Positives = 33/79 (41%), Gaps = 8/79 (10%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV 54
             + + GL     ERDL +    YG I DV +          GF FV FE+  DA +A 
Sbjct: 15 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 74

Query: 55 YELNGKSLLGERVTVEIAK 73
             NG  L G R+ V    
Sbjct: 75 ERANGMELDGRRIRVSGPS 93

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

 Score = 50.3 bits (121), Expect = 1e-08
 Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 5/79 (6%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAH-KRHRNEGVVEFESSSD 162
                +  L V  LS   + +DL++   + G +       D   +R R    V FE+  D
Sbjct: 10  ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDD 69

Query: 163 MKKALDKLDNAELNGRRIR 181
            K+A ++ +  EL+GRRIR
Sbjct: 70  AKEAKERANGMELDGRRIR 88

>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 = 66.2 bits (162), Expect = 2e-14
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 8/80 (10%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
           T + +  +P+ V   ++  F  GY  I   +           G   V FE   +A  AV
Sbjct: 15 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAV 74

Query: 55 YELNGKSLLGERVTVEIAKG 74
           +LN + +   +V + +  G
Sbjct: 75 IDLNDRPIGSRKVKLVLGSG 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 = 54.2 bits (131), Expect = 6e-10
 Identities = 16/85 (18%), Positives = 34/85 (40%), Gaps = 5/85 (5%)

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSSDMKKA 166
               + V+N+   VS  ++ DF      +  +     +       E +V FES  +   A
Sbjct: 14  GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAA 73

Query: 167 LDKLDNAELNGRRIRLIEDKPRGGG 191
           +  L++  +  R+++L+       G
Sbjct: 74  VIDLNDRPIGSRKVKLVLGSGPSSG 98

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 66.1 bits (162), Expect = 3e-14
 Identities = 17/87 (19%), Positives = 34/87 (39%), Gaps = 4/87 (4%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN----GFGFVEFEDYRDADDAVYELN 58
              + +  L Y   E  L++  +    I+    +N    G+ F+EF  + DA +A+   N
Sbjct: 15  SKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCN 74

Query: 59  GKSLLGERVTVEIAKGIDRSQERGRRG 85
            + + G  + +E+             G
Sbjct: 75  KREIEGRAIRLELQGPRGSPNSGPSSG 101

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 56.9 bits (138), Expect = 7e-11
 Identities = 22/91 (24%), Positives = 39/91 (42%), Gaps = 1/91 (1%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADA-HKRHRNEGVVEFESSSDMKKA 166
             +     L++ NLS   + + L++   +   +      + + +    +EF S  D K+A
Sbjct: 10  TWSGESKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEA 69

Query: 167 LDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           L+  +  E+ GR IRL    PRG       S
Sbjct: 70  LNSCNKREIEGRAIRLELQGPRGSPNSGPSS 100

>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 = 65.7 bits (161), Expect = 3e-14
 Identities = 20/90 (22%), Positives = 32/90 (35%), Gaps = 8/90 (8%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
            VY+G +PY   E  +       G + ++ +          G+ F+EF D   +  AV 
Sbjct: 3  RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVR 62

Query: 56 ELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
           LNG  L    +    +   D S       
Sbjct: 63 NLNGYQLGSRFLKCGYSSNSDISGVSLEHH 92

>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 = 49.5 bits (119), Expect = 2e-08
 Identities = 11/86 (12%), Positives = 24/86 (27%), Gaps = 5/86 (5%)

Query: 118 VENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDN 172
           + ++    + + + D    VG V            R +    +EF        A+  L+ 
Sbjct: 7   LGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNG 66

Query: 173 AELNGRRIRLIEDKPRGGGRGRSRSS 198
            +L  R ++                 
Sbjct: 67  YQLGSRFLKCGYSSNSDISGVSLEHH 92

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

 Score = 66.2 bits (162), Expect = 3e-14
 Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 6/77 (7%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN------GFGFVEFEDYRDADDAVYE 56
             ++++  +P+  R+ DL +    +G+I DV +        GFGFV FE+  DAD A  +
Sbjct: 29  PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREK 88

Query: 57  LNGKSLLGERVTVEIAK 73
           L+G  + G ++ V  A 
Sbjct: 89  LHGTVVEGRKIEVNNAT 105

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

 Score = 51.9 bits (125), Expect = 5e-09
 Identities = 26/115 (22%), Positives = 45/115 (39%), Gaps = 13/115 (11%)

Query: 77  RSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQ 136
            S            +    RG   + +++  P      RL V N+  R    DL+    Q
Sbjct: 3   SSHHHHHH-----SSGLVPRGSHMNTENKSQP-----KRLHVSNIPFRFRDPDLRQMFGQ 52

Query: 137 VGEVCYADA---HKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
            G++   +     +  +  G V FE+S+D  +A +KL    + GR+I +     R
Sbjct: 53  FGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATAR 107

>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 = 65.7 bits (161), Expect = 3e-14
 Identities = 15/83 (18%), Positives = 32/83 (38%), Gaps = 5/83 (6%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRI---RDVILKNGFGFVEFEDYRDADDAVYELNG 59
             +    L + + E +L++  +    I          G  ++EF+   DA+  + E  G
Sbjct: 16 ARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQG 75

Query: 60 KSLLGERVTVEIAKGIDRSQERG 82
            + G  V++      ++   RG
Sbjct: 76 AEIDGRSVSLYYTG--EKGGTRG 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 = 61.5 bits (150), Expect = 1e-12
 Identities = 23/86 (26%), Positives = 43/86 (50%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKAL 167
              R+   L+ +NLS  ++  +LK+      E+       + +    +EF+S +D +K L
Sbjct: 11  KKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNL 70

Query: 168 DKLDNAELNGRRIRLIEDKPRGGGRG 193
           ++   AE++GR + L     +GG RG
Sbjct: 71  EEKQGAEIDGRSVSLYYTGEKGGTRG 96

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

 Score = 66.7 bits (163), Expect = 5e-14
 Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 8/77 (10%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
             +Y+GGL   V ++ L      +G I D+ +          GF FVEFE   DA  A+ 
Sbjct: 64  RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAID 123

Query: 56  ELNGKSLLGERVTVEIA 72
            +N   L G  + V +A
Sbjct: 124 NMNESELFGRTIRVNLA 140

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

 Score = 62.1 bits (151), Expect = 2e-12
 Identities = 23/92 (25%), Positives = 34/92 (36%), Gaps = 5/92 (5%)

Query: 95  RRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RH 149
               G       G    +   L V  L+  V  + L       G++            +H
Sbjct: 45  HVDGGSGGSGGSGGSATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKH 104

Query: 150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
           R    VEFE + D   A+D ++ +EL GR IR
Sbjct: 105 RGFAFVEFELAEDAAAAIDNMNESELFGRTIR 136

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 95

 Score = 64.9 bits (159), Expect = 6e-14
 Identities = 25/94 (26%), Positives = 41/94 (43%), Gaps = 14/94 (14%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
          + +Y+G L + + E  L    + +G+I +++L          G+GF+ F D   A  A+ 
Sbjct: 6  SGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALE 65

Query: 56 ELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSY 89
          +LNG  L G  + V          ER   G G  
Sbjct: 66 QLNGFELAGRPMRV------GHVTERLDGGSGPS 93

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 95

 Score = 55.3 bits (134), Expect = 2e-10
 Identities = 21/88 (23%), Positives = 36/88 (40%), Gaps = 5/88 (5%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDK 169
            L V +L   ++   L+      G++      K     R +  G + F  S   ++AL++
Sbjct: 7   GLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQ 66

Query: 170 LDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           L+  EL GR +R+     R  G     S
Sbjct: 67  LNGFELAGRPMRVGHVTERLDGGSGPSS 94

>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 = 66.4 bits (163), Expect = 8e-14
 Identities = 35/189 (18%), Positives = 66/189 (34%), Gaps = 47/189 (24%)

Query: 4   TKVYIGGLPYGVRERDL-EKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAV 54
           T + +  LP  + + +    F    G I    ++++       G+GFV + D +DA+ A+
Sbjct: 3   TNLIVNYLPQNMTQEEFRSLFGS-IGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDH 114
             LNG  L  + + V                  SY  P                    D 
Sbjct: 62  NTLNGLRLQTKTIKV------------------SYARPSSAS--------------IRDA 89

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGE-----VCYADAHKRHRNEGVVEFESSSDMKKALDK 169
            L V  L   ++ ++L+    Q G      +         R  G + F+   + ++A+  
Sbjct: 90  NLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKG 149

Query: 170 LDNAELNGR 178
           L+  + +G 
Sbjct: 150 LNGQKPSGA 158

>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 = 59.1 bits (144), Expect = 4e-11
 Identities = 26/80 (32%), Positives = 43/80 (53%), Gaps = 10/80 (12%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAV 54
              +Y+ GLP  + +++LE+    YGRI    IL +       G GF+ F+   +A++A+
Sbjct: 88  DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAI 147

Query: 55  YELNGKSLLG--ERVTVEIA 72
             LNG+   G  E +TV+ A
Sbjct: 148 KGLNGQKPSGATEPITVKFA 167

>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 = 50.3 bits (121), Expect = 5e-08
 Identities = 16/83 (19%), Positives = 33/83 (39%), Gaps = 5/83 (6%)

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFESSSDMKKA 166
           S   LIV  L   ++ ++ +     +GE+            +    G V +    D +KA
Sbjct: 1   SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60

Query: 167 LDKLDNAELNGRRIRLIEDKPRG 189
           ++ L+   L  + I++   +P  
Sbjct: 61  INTLNGLRLQTKTIKVSYARPSS 83

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

 Score = 65.0 bits (159), Expect = 9e-14
 Identities = 21/79 (26%), Positives = 40/79 (50%), Gaps = 8/79 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
           G  +++ G+     E D+      YG I+++ L          G+  VE+E Y++A  A+
Sbjct: 23  GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 82

Query: 55  YELNGKSLLGERVTVEIAK 73
             LNG+ L+G+ ++V+   
Sbjct: 83  EGLNGQDLMGQPISVDWCF 101

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

 Score = 51.1 bits (123), Expect = 8e-09
 Identities = 20/96 (20%), Positives = 41/96 (42%), Gaps = 7/96 (7%)

Query: 101 DRDDRYGPPTRSD--HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEG 153
           ++D     P RS     L V  +    + +D+ D   + GE+     +        +   
Sbjct: 9   EQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYT 68

Query: 154 VVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG 189
           +VE+E+  + + A++ L+  +L G+ I +     RG
Sbjct: 69  LVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFVRG 104

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 65.0 bits (159), Expect = 9e-14
 Identities = 24/113 (21%), Positives = 38/113 (33%), Gaps = 4/113 (3%)

Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----RHRNEGV 154
           G           R    + V NL  +V W+ LK+     G V  AD  +    + R  G 
Sbjct: 1   GSSGSSGALQAGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGT 60

Query: 155 VEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSR 207
           V FE S +  +A+   +   L  R + +  D+              +    S 
Sbjct: 61  VTFEQSIEAVQAISMFNGQLLFDRPMHVKMDERALPKGDFFPPERPQQSGPSS 113

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 63.9 bits (156), Expect = 2e-13
 Identities = 21/99 (21%), Positives = 39/99 (39%), Gaps = 7/99 (7%)

Query: 2   VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN------GFGFVEFEDYRDADDAV 54
           +G+ V++  L Y V  + L++     G +    IL++      G G V FE   +A  A+
Sbjct: 14  LGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAI 73

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPP 93
              NG+ L    + V++ +      +           P 
Sbjct: 74  SMFNGQLLFDRPMHVKMDERALPKGDFFPPERPQQSGPS 112

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 64.6 bits (158), Expect = 1e-13
 Identities = 22/91 (24%), Positives = 34/91 (37%), Gaps = 11/91 (12%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
              + +  L    RE DL++  + +G I  + L          GF F+ F    DA  A+
Sbjct: 15  NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAI 74

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
             ++G       + VE AK    S   G   
Sbjct: 75  AGVSGFGYDHLILNVEWAK---PSTNSGPSS 102

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 52.2 bits (126), Expect = 3e-09
 Identities = 19/100 (19%), Positives = 33/100 (33%), Gaps = 7/100 (7%)

Query: 103 DDRYGPPTRSD--HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVV 155
               GP  R+D    + V NLS      DL++  R  G +      K     + +    +
Sbjct: 3   SGSSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFI 62

Query: 156 EFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRS 195
            F    D  +A+  +     +   + +   KP       S
Sbjct: 63  SFHRREDAARAIAGVSGFGYDHLILNVEWAKPSTNSGPSS 102

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Length = 158

 Score = 66.0 bits (161), Expect = 1e-13
 Identities = 25/79 (31%), Positives = 39/79 (49%), Gaps = 8/79 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV 54
            T + +  L Y      L +  + YGR+ DV +          GF FV F D RDA+DA+
Sbjct: 70  MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 129

Query: 55  YELNGKSLLGERVTVEIAK 73
             ++G  L G  + V++A+
Sbjct: 130 DAMDGAVLDGRELRVQMAR 148

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Length = 158

 Score = 49.8 bits (119), Expect = 8e-08
 Identities = 25/120 (20%), Positives = 39/120 (32%), Gaps = 13/120 (10%)

Query: 76  DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMR 135
           +           +           H         T     L V+NL+ R S   L+    
Sbjct: 37  NGVDGEWTYDDATKTFTVTEGSHHHHHHMDVEGMTS----LKVDNLTYRTSPDTLRRVFE 92

Query: 136 QVGEVCYADAH-------KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
           + G V   D +       K  R    V F    D + A+D +D A L+GR +R+   +  
Sbjct: 93  KYGRV--GDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYG 150

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Length = 115

 Score = 64.6 bits (158), Expect = 1e-13
 Identities = 24/88 (27%), Positives = 36/88 (40%), Gaps = 7/88 (7%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRI------RDVILKNGFGFVEFEDYRDADDAVYEL 57
            ++I  L   +  + L      +G I       D     G+GFV FE    A+ A+ ++
Sbjct: 6  GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM 65

Query: 58 NGKSLLGERVTVEIAKG-IDRSQERGRR 84
          NG  L   +V V   K   +R  E G R
Sbjct: 66 NGMLLNDRKVFVGRFKSRKEREAELGAR 93

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Length = 115

 Score = 41.1 bits (97), Expect = 4e-05
 Identities = 17/91 (18%), Positives = 37/91 (40%), Gaps = 5/91 (5%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKLD 171
           + ++NL   +  + L D     G +       D +   +  G V FE+    ++A++K++
Sbjct: 8   IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN-GSKGYGFVHFETQEAAERAIEKMN 66

Query: 172 NAELNGRRIRLIEDKPRGGGRGRSRSSSSRS 202
              LN R++ +   K R        + +   
Sbjct: 67  GMLLNDRKVFVGRFKSRKEREAELGARAKEF 97

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

 Score = 64.0 bits (156), Expect = 1e-13
 Identities = 16/82 (19%), Positives = 28/82 (34%), Gaps = 5/82 (6%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-----GFGFVEFEDYRDADDAVYEL 57
            K+ I  +P  ++   L+  +  YG +      N         V +     A  A+ +L
Sbjct: 15 IRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKL 74

Query: 58 NGKSLLGERVTVEIAKGIDRSQ 79
          NG  L    + V        +Q
Sbjct: 75 NGFQLENFTLKVAYIPDEMAAQ 96

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

 Score = 61.3 bits (149), Expect = 1e-12
 Identities = 20/92 (21%), Positives = 36/92 (39%), Gaps = 4/92 (4%)

Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGV--VE 156
           G        P  +   +L + N+   + W+ L   + Q G V   +         V  V 
Sbjct: 1   GSSGSSGSVPKRQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVT 60

Query: 157 FESSSDMKKALDKLDNAELNGRRIR--LIEDK 186
           + S    ++ALDKL+  +L    ++   I D+
Sbjct: 61  YSSKDQARQALDKLNGFQLENFTLKVAYIPDE 92

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Length = 118

 Score = 64.7 bits (158), Expect = 1e-13
 Identities = 19/79 (24%), Positives = 35/79 (44%), Gaps = 8/79 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAV 54
           G  ++I  LP    + DL      +G +    +  +        FGFV F++   A  A+
Sbjct: 40  GCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAI 99

Query: 55  YELNGKSLLGERVTVEIAK 73
             +NG  +  +R+ V++ K
Sbjct: 100 KAMNGFQVGTKRLKVQLKK 118

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 63.9 bits (156), Expect = 1e-13
 Identities = 17/85 (20%), Positives = 27/85 (31%), Gaps = 16/85 (18%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN----------------GFGFVEFEDY 47
            +++ GL   V    +  + K  G I+                      G   V F+D 
Sbjct: 14 NTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDP 73

Query: 48 RDADDAVYELNGKSLLGERVTVEIA 72
            A  A+   +GK   G  + V  A
Sbjct: 74 PSAKAAIDWFDGKEFSGNPIKVSFA 98

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 49.2 bits (118), Expect = 4e-08
 Identities = 19/92 (20%), Positives = 36/92 (39%), Gaps = 14/92 (15%)

Query: 104 DRYGPPTRSDHRLI-VENLSSRVSWQDLKDFMRQVGEVCYADAHK-------------RH 149
             +   + SD+  I V+ L   V+ + + D+ +Q+G +                    + 
Sbjct: 3   HHHHHHSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKL 62

Query: 150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
           + E  V F+     K A+D  D  E +G  I+
Sbjct: 63  KGEATVSFDDPPSAKAAIDWFDGKEFSGNPIK 94

>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 = 63.8 bits (156), Expect = 2e-13
 Identities = 21/90 (23%), Positives = 35/90 (38%), Gaps = 8/90 (8%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
           ++++  L Y   E DLEK    YG + ++            GF FV F     A  A  
Sbjct: 9  GRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYA 68

Query: 56 ELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
          E++G+   G  + V  +     + + G   
Sbjct: 69 EVDGQVFQGRMLHVLPSTIKKEASQSGPSS 98

>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 = 50.7 bits (122), Expect = 1e-08
 Identities = 21/91 (23%), Positives = 34/91 (37%), Gaps = 9/91 (9%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRNEGVVEFESSSDMKKAL 167
           RL V NLS   S +DL+      G +  ++ H       K+ +    V F       KA 
Sbjct: 10  RLFVRNLSYTSSEEDLEKLFSAYGPL--SELHYPIDSLTKKPKGFAFVTFMFPEHAVKAY 67

Query: 168 DKLDNAELNGRRIRLIEDKPRGGGRGRSRSS 198
            ++D     GR + ++    +        SS
Sbjct: 68  AEVDGQVFQGRMLHVLPSTIKKEASQSGPSS 98

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 102

 Score = 63.0 bits (154), Expect = 3e-13
 Identities = 23/87 (26%), Positives = 35/87 (40%), Gaps = 5/87 (5%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-----GFGFVEFEDYRDADDAVYELN 58
             +++ GL     E  L++   G  R R V  +      GFGFV+F    DA  A   + 
Sbjct: 16  KTLFVKGLSEDTTEETLKESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAME 75

Query: 59  GKSLLGERVTVEIAKGIDRSQERGRRG 85
              + G +VT++ AK           G
Sbjct: 76  DGEIDGNKVTLDWAKPKGEGGSGPSSG 102

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 102

 Score = 50.7 bits (122), Expect = 1e-08
 Identities = 25/95 (26%), Positives = 40/95 (42%), Gaps = 4/95 (4%)

Query: 107 GPPTRSD--HRLIVENLSSRVSWQDLKDFMRQVGEVC--YADAHKRHRNEGVVEFESSSD 162
           GP  RS     L V+ LS   + + LK+                   +  G V+F S  D
Sbjct: 7   GPNARSQPSKTLFVKGLSEDTTEETLKESFDGSVRARIVTDRETGSSKGFGFVDFNSEED 66

Query: 163 MKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
            K A + +++ E++G ++ L   KP+G G     S
Sbjct: 67  AKAAKEAMEDGEIDGNKVTLDWAKPKGEGGSGPSS 101

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 101

 Score = 63.0 bits (154), Expect = 3e-13
 Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 8/82 (9%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------GFGFVEFEDYRDADDAVYEL 57
           ++IG L       +L+  +       D+ + +        FG+V+FE   D + A+ EL
Sbjct: 19 NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL-EL 77

Query: 58 NGKSLLGERVTVEIAKGIDRSQ 79
           G  + G  + +E  KG D ++
Sbjct: 78 TGLKVFGNEIKLEKPKGRDGTR 99

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 101

 Score = 53.4 bits (129), Expect = 1e-09
 Identities = 27/95 (28%), Positives = 45/95 (47%), Gaps = 5/95 (5%)

Query: 103 DDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFE 158
           D   G  + +   L + NL+   S  +LK  + ++               +R  G V+FE
Sbjct: 7   DPVEGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFE 66

Query: 159 SSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRG 193
           S+ D++KAL+ L   ++ G  I+L + K R G RG
Sbjct: 67  SAEDLEKALE-LTGLKVFGNEIKLEKPKGRDGTRG 100

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 63.4 bits (155), Expect = 4e-13
 Identities = 19/78 (24%), Positives = 33/78 (42%), Gaps = 7/78 (8%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN------GFGFVEFEDYRDADDAVY 55
            T +YI  LP  + E++LE  +K +G++    IL++      G GF   E     +  + 
Sbjct: 25  PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIG 84

Query: 56  ELNGKSLLGERVTVEIAK 73
             NGK +          +
Sbjct: 85  HFNGKFIKTPPGVSAPTE 102

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 38.8 bits (91), Expect = 3e-04
 Identities = 13/77 (16%), Positives = 28/77 (36%), Gaps = 4/77 (5%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKLD 171
           L + NL   +  Q+L++ ++  G+V       D+    R  G    ES+   +  +   +
Sbjct: 28  LYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFN 87

Query: 172 NAELNGRRIRLIEDKPR 188
              +          +P 
Sbjct: 88  GKFIKTPPGVSAPTEPL 104

>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 = 63.1 bits (154), Expect = 4e-13
 Identities = 17/79 (21%), Positives = 38/79 (48%), Gaps = 8/79 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
           G  +++  +    +E ++++    YG I+++ L          G+  VE+E ++ A  A 
Sbjct: 26  GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAK 85

Query: 55  YELNGKSLLGERVTVEIAK 73
             LNG  ++G+ + V+   
Sbjct: 86  EALNGAEIMGQTIQVDWCF 104

>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 = 48.8 bits (117), Expect = 7e-08
 Identities = 17/95 (17%), Positives = 38/95 (40%), Gaps = 6/95 (6%)

Query: 101 DRDDRYGPPTRSD-HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGV 154
           D +   GP    +   L V ++       ++++     GE+     +        +   +
Sbjct: 13  DDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYAL 72

Query: 155 VEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG 189
           VE+E+      A + L+ AE+ G+ I++     +G
Sbjct: 73  VEYETHKQALAAKEALNGAEIMGQTIQVDWCFVKG 107

>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 = 62.7 bits (153), Expect = 4e-13
 Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 4/73 (5%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-GFGFVEFEDYRDADDAVYELNGK 60
          G  +Y+ G    +    L      +G I D+ +       FV +E    AD AV ELNG 
Sbjct: 15 GNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGT 72

Query: 61 SLLGERVTVEIAK 73
           +   ++ V IA+
Sbjct: 73 QVESVQLKVNIAR 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 = 37.3 bits (87), Expect = 6e-04
 Identities = 8/61 (13%), Positives = 23/61 (37%), Gaps = 1/61 (1%)

Query: 128 QDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP 187
             L+      G +         RN   V +E      +A+ +L+  ++   ++++   + 
Sbjct: 28  TLLRGAFSPFGNIIDLSMDP-PRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK 86

Query: 188 R 188
           +
Sbjct: 87  Q 87

>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 = 65.4 bits (160), Expect = 5e-13
 Identities = 40/191 (20%), Positives = 72/191 (37%), Gaps = 45/191 (23%)

Query: 4   TKVYIGGLPYGVRERDL-EKFVKGYGR------IRDVILKN--GFGFVEFEDYRDADDAV 54
             +Y+G L   V E  L EKF    G        RD+I +   G+ +V F+   DA+ A+
Sbjct: 16  ASLYVGDLHPDVTEAMLYEKFSP-AGPILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 74

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDH 114
             +N   + G+ V +  +                 R P  R+                  
Sbjct: 75  DTMNFDVIKGKPVRIMWS----------------QRDPSLRKS--------------GVG 104

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKL 170
            + ++NL   +  + L D     G +       D +   +  G V FE+    ++A++K+
Sbjct: 105 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN-GSKGYGFVHFETQEAAERAIEKM 163

Query: 171 DNAELNGRRIR 181
           +   LN R++ 
Sbjct: 164 NGMLLNDRKVF 174

>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 = 55.7 bits (135), Expect = 1e-09
 Identities = 24/100 (24%), Positives = 39/100 (39%), Gaps = 7/100 (7%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-----GFGFVEFEDYRDADDAVYE 56
              ++I  L   +  + L      +G I    ++ +     G+GFV FE    A+ A+ +
Sbjct: 103 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEK 162

Query: 57  LNGKSLLGERVTVEIA-KGIDRSQERGRRGYGSYRAPPPR 95
           +NG  L   +V V       +R  E G R    Y    P 
Sbjct: 163 MNGMLLNDRKVFVGRFKSRKEREAELGARAKEFYPYDVPD 202

>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 = 48.8 bits (117), Expect = 3e-07
 Identities = 17/81 (20%), Positives = 33/81 (40%), Gaps = 5/81 (6%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFESSS 161
             P+     L V +L   V+   L +     G +     C     +R      V F+  +
Sbjct: 9   SAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPA 68

Query: 162 DMKKALDKLDNAELNGRRIRL 182
           D ++ALD ++   + G+ +R+
Sbjct: 69  DAERALDTMNFDVIKGKPVRI 89

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A Length = 115

 Score = 63.1 bits (154), Expect = 5e-13
 Identities = 19/91 (20%), Positives = 41/91 (45%), Gaps = 8/91 (8%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAV 54
           G  ++I  LP    ++DL +    +G +    +  +        FGFV +++   A  A+
Sbjct: 25  GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAI 84

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
             +NG  +  +R+ V++ +  + S+     G
Sbjct: 85  QSMNGFQIGMKRLKVQLKRSKNDSKSGPSSG 115

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 62.7 bits (153), Expect = 5e-13
 Identities = 26/91 (28%), Positives = 41/91 (45%), Gaps = 10/91 (10%)

Query: 4   TKVYIGGLPYGVRERDL-EKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
             VY+GGL   V E  L E F++  G + +  +          G+GFVEF    DAD A+
Sbjct: 16  ATVYVGGLDEKVSEPLLWELFLQ-AGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
             ++   L G+ + V  A   +++      G
Sbjct: 75  KIMDMIKLYGKPIRVNKASAHNKNLSGPSSG 105

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 55.3 bits (134), Expect = 2e-10
 Identities = 25/100 (25%), Positives = 39/100 (39%), Gaps = 11/100 (11%)

Query: 107 GPPTRSDH--RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRNEGVVEF 157
           GP +  +    + V  L  +VS   L +   Q G V   + H        +H+  G VEF
Sbjct: 7   GPISERNQDATVYVGGLDEKVSEPLLWELFLQAGPV--VNTHMPKDRVTGQHQGYGFVEF 64

Query: 158 ESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
            S  D   A+  +D  +L G+ IR+ +            S
Sbjct: 65  LSEEDADYAIKIMDMIKLYGKPIRVNKASAHNKNLSGPSS 104

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 62.7 bits (153), Expect = 5e-13
 Identities = 20/94 (21%), Positives = 38/94 (40%), Gaps = 11/94 (11%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-----------GFGFVEFEDYRDAD 51
           + ++I  L +   E  L+      G I+   +             GFGFVE++    A 
Sbjct: 5  SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQ 64

Query: 52 DAVYELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
           A+ +L G ++ G ++ V I++   +       G
Sbjct: 65 KALKQLQGHTVDGHKLEVRISERATKPASGPSSG 98

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 45.7 bits (109), Expect = 7e-07
 Identities = 16/91 (17%), Positives = 33/91 (36%), Gaps = 8/91 (8%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYAD--------AHKRHRNEGVVEFESSSDMKKA 166
            L ++NL+   + + LK    +VG +                    G VE++     +KA
Sbjct: 7   GLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKA 66

Query: 167 LDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           L +L    ++G ++ +   +          S
Sbjct: 67  LKQLQGHTVDGHKLEVRISERATKPASGPSS 97

>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 = 62.7 bits (153), Expect = 5e-13
 Identities = 28/103 (27%), Positives = 45/103 (43%), Gaps = 8/103 (7%)

Query: 87  GSYRAPPPRRGWGHDR-DDRYGPPTRSD--HRLIVENLSSRVSWQDLKDFMRQVGEVCYA 143
           GS     P + W HD  D  +G     +   +L+V NL   VS  D+++   + G +  A
Sbjct: 1   GSRPKQLPDK-WQHDLFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKA 59

Query: 144 DAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
             H     R      V FE  +D  KA+ + +   L+GR + +
Sbjct: 60  AVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNI 102

>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 = 59.6 bits (145), Expect = 7e-12
 Identities = 18/77 (23%), Positives = 35/77 (45%), Gaps = 7/77 (9%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVY 55
           G K+ +  L +GV + D+++    +G ++   +         G   V FE   DA  A+ 
Sbjct: 29  GGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMK 88

Query: 56  ELNGKSLLGERVTVEIA 72
           + NG  L G  + +++ 
Sbjct: 89  QYNGVPLDGRPMNIQLV 105

>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 = 62.7 bits (153), Expect = 6e-13
 Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 2/72 (2%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDV--ILKNGFGFVEFEDYRDADDAVYELNGKS 61
            VY GG+  G+ ++ + +    +G+I ++    + G+ FV F  +  A  A+  +NG +
Sbjct: 26 CTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTT 85

Query: 62 LLGERVTVEIAK 73
          + G  V     K
Sbjct: 86 IEGHVVKCYWGK 97

>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 = 49.3 bits (118), Expect = 4e-08
 Identities = 12/111 (10%), Positives = 32/111 (28%), Gaps = 3/111 (2%)

Query: 87  GSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH 146
           GS  +    +    +       P      +    ++S ++ Q ++      G++      
Sbjct: 1   GSSGSSGNTKQLRFEDVVNQSSPKNC--TVYCGGIASGLTDQLMRQTFSPFGQIMEIRVF 58

Query: 147 KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
              +    V F +      A+  ++   + G  ++    K          S
Sbjct: 59  -PEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESPDMTSGPSS 108

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

 Score = 62.7 bits (153), Expect = 6e-13
 Identities = 23/93 (24%), Positives = 40/93 (43%), Gaps = 10/93 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---------KNGFGFVEFEDYRDADDA 53
            +K+ +  +P+   +R++ +    +G ++ V L           GFGFV+F   +DA  A
Sbjct: 15  TSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKA 74

Query: 54  VYEL-NGKSLLGERVTVEIAKGIDRSQERGRRG 85
              L +   L G R+ +E A      Q     G
Sbjct: 75  FNALCHSTHLYGRRLVLEWADSEVTVQSGPSSG 107

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

 Score = 50.4 bits (121), Expect = 2e-08
 Identities = 21/97 (21%), Positives = 41/97 (42%), Gaps = 7/97 (7%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA------DAHKRHRNEGVVEFESSS 161
           P  ++  +++V N+  + + +++++     GE+              HR  G V+F +  
Sbjct: 10  PKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQ 69

Query: 162 DMKKALDKLDN-AELNGRRIRLIEDKPRGGGRGRSRS 197
           D KKA + L +   L GRR+ L         +    S
Sbjct: 70  DAKKAFNALCHSTHLYGRRLVLEWADSEVTVQSGPSS 106

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens} Length = 108

 Score = 62.3 bits (152), Expect = 7e-13
 Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 8/78 (10%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
            ++Y+G L + + E  L    + +GRI  + L          G+GF+ F D   A  A+ 
Sbjct: 27  MRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALE 86

Query: 56  ELNGKSLLGERVTVEIAK 73
           +LNG  L G  + V    
Sbjct: 87  QLNGFELAGRPMKVGHVT 104

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens} Length = 108

 Score = 55.8 bits (135), Expect = 2e-10
 Identities = 20/90 (22%), Positives = 35/90 (38%), Gaps = 5/90 (5%)

Query: 104 DRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFE 158
           +     +    RL V +L   ++   L+      G +            R +  G + F 
Sbjct: 17  NNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFS 76

Query: 159 SSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
            S   KKAL++L+  EL GR +++     R
Sbjct: 77  DSECAKKALEQLNGFELAGRPMKVGHVTER 106

>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 = 61.9 bits (151), Expect = 7e-13
 Identities = 23/77 (29%), Positives = 31/77 (40%), Gaps = 7/77 (9%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN------GFGFVEFEDYRDADDAVY 55
             V++G L   VRE  L +     G +  V I K+       FGFV F+       A+ 
Sbjct: 16 DRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIA 75

Query: 56 ELNGKSLLGERVTVEIA 72
           LNG  L G  + V   
Sbjct: 76 LLNGIRLYGRPINVSGP 92

>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 = 54.2 bits (131), Expect = 5e-10
 Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 4/75 (5%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKA 166
            +D  + V NL +RV  + L +   Q G +       D   + ++ G V F+    +  A
Sbjct: 14  EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYA 73

Query: 167 LDKLDNAELNGRRIR 181
           +  L+   L GR I 
Sbjct: 74  IALLNGIRLYGRPIN 88

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Length = 139

 Score = 62.8 bits (153), Expect = 9e-13
 Identities = 26/95 (27%), Positives = 41/95 (43%), Gaps = 10/95 (10%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADD 52
            V   + +  +P  V E  L +  + YG I  V +          G+GFV+F+    A  
Sbjct: 40  DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQ 99

Query: 53  AVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYG 87
           A+  LNG ++L +R+ V +A      Q  G  G  
Sbjct: 100 AIAGLNGFNILNKRLKVALAA--SGHQRPGIAGAV 132

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Length = 139

 Score = 45.1 bits (107), Expect = 2e-06
 Identities = 16/103 (15%), Positives = 38/103 (36%), Gaps = 5/103 (4%)

Query: 105 RYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFES 159
           +  P       L+V  + + V    L+    + G +            + R  G V+F+S
Sbjct: 34  QMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQS 93

Query: 160 SSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRS 202
            S  ++A+  L+   +  +R+++          G + +    +
Sbjct: 94  GSSAQQAIAGLNGFNILNKRLKVALAASGHQRPGIAGAVGDGN 136

>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 = 61.6 bits (150), Expect = 9e-13
 Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 8/78 (10%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
           T + +  +P+ V   ++  F  GY  I   +           G   V FE   +A  AV
Sbjct: 15 PTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAV 74

Query: 55 YELNGKSLLGERVTVEIA 72
           +LN + +   +V +   
Sbjct: 75 IDLNDRPIGSRKVKLSGP 92

>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 = 53.1 bits (128), Expect = 1e-09
 Identities = 15/76 (19%), Positives = 32/76 (42%), Gaps = 5/76 (6%)

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSSDMKKA 166
               + V+N+   VS  ++ DF      +  +     +       E +V FES  +   A
Sbjct: 14  GPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAA 73

Query: 167 LDKLDNAELNGRRIRL 182
           +  L++  +  R+++L
Sbjct: 74  VIDLNDRPIGSRKVKL 89

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

 Score = 61.6 bits (150), Expect = 1e-12
 Identities = 23/86 (26%), Positives = 36/86 (41%), Gaps = 6/86 (6%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKS 61
           V++ G P GV    L ++   +G +  V++   K  F  VE  D   A +AV   +  S
Sbjct: 10 SVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDV-GAREAVLSQSQHS 68

Query: 62 LLGERVTVEIA--KGIDRSQERGRRG 85
          L G R+ V     K       +  +G
Sbjct: 69 LGGHRLRVRPREQKEFQSPASKSPKG 94

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

 Score = 44.2 bits (105), Expect = 2e-06
 Identities = 15/80 (18%), Positives = 24/80 (30%), Gaps = 1/80 (1%)

Query: 118 VENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNG 177
           V      V    L ++    G V      K      +VE       +  L       L G
Sbjct: 13  VSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAVL-SQSQHSLGG 71

Query: 178 RRIRLIEDKPRGGGRGRSRS 197
            R+R+   + +      S+S
Sbjct: 72  HRLRVRPREQKEFQSPASKS 91

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

 Score = 62.3 bits (152), Expect = 1e-12
 Identities = 27/95 (28%), Positives = 39/95 (41%), Gaps = 15/95 (15%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
            V+   L   +R RDLE F    G++RDV + +        G  +VEF + +    A+  
Sbjct: 27  TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-G 85

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRA 91
           L G+ LLG  + V        SQ    R  G    
Sbjct: 86  LTGQRLLGVPIIV------QASQAEKNRLSGPSSG 114

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

 Score = 45.4 bits (108), Expect = 1e-06
 Identities = 19/85 (22%), Positives = 31/85 (36%), Gaps = 6/85 (7%)

Query: 118 VENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSSDMKKALDKLDN 172
              L++R+  +DL+DF   VG+V           +R +    VEF     +  A+  L  
Sbjct: 30  CMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTG 88

Query: 173 AELNGRRIRLIEDKPRGGGRGRSRS 197
             L G  I +   +          S
Sbjct: 89  QRLLGVPIIVQASQAEKNRLSGPSS 113

>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 = 61.5 bits (150), Expect = 1e-12
 Identities = 17/77 (22%), Positives = 38/77 (49%), Gaps = 9/77 (11%)

Query: 6  VYIGGLPYGVRERDLEKFVKG----YGRIRDVILKN-----GFGFVEFEDYRDADDAVYE 56
          +YI  L   +++ +L+K +      +G+I D+++       G  FV F++   A +A+  
Sbjct: 11 IYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRS 70

Query: 57 LNGKSLLGERVTVEIAK 73
          + G     + + ++ AK
Sbjct: 71 MQGFPFYDKPMRIQYAK 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 = 45.3 bits (108), Expect = 8e-07
 Identities = 16/80 (20%), Positives = 33/80 (41%), Gaps = 6/80 (7%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQV----GEV--CYADAHKRHRNEGVVEFESSS 161
           P TR +H + + NL+ ++   +LK  +  +    G++         + R +  V F+  S
Sbjct: 3   PETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVS 62

Query: 162 DMKKALDKLDNAELNGRRIR 181
               AL  +       + +R
Sbjct: 63  SATNALRSMQGFPFYDKPMR 82

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

 Score = 62.0 bits (151), Expect = 1e-12
 Identities = 22/113 (19%), Positives = 34/113 (30%), Gaps = 20/113 (17%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN----------------GFGFVEFEDY 47
             +++ GL   V    +  + K  G I+                      G   V F+D 
Sbjct: 8   NTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDP 67

Query: 48  RDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGH 100
             A  A+   +GK   G  + V  A      +    RG G+ R         H
Sbjct: 68  PSAKAAIDWFDGKEFSGNPIKVSFA----TRRADFNRGGGNGRGGLEHHHHHH 116

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

 Score = 50.1 bits (120), Expect = 2e-08
 Identities = 25/99 (25%), Positives = 40/99 (40%), Gaps = 18/99 (18%)

Query: 118 VENLSSRVSWQDLKDFMRQVGEVC------------YADAHK-RHRNEGVVEFESSSDMK 164
           V+ L   V+ + + D+ +Q+G +             Y D    + + E  V F+     K
Sbjct: 12  VQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAK 71

Query: 165 KALDKLDNAELNGRRIRLIE-----DKPRGGGRGRSRSS 198
            A+D  D  E +G  I++       D  RGGG GR    
Sbjct: 72  AAIDWFDGKEFSGNPIKVSFATRRADFNRGGGNGRGGLE 110

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 85

 Score = 61.0 bits (149), Expect = 1e-12
 Identities = 20/76 (26%), Positives = 31/76 (40%), Gaps = 8/76 (10%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV 54
           + +YI GL  G  ++DL K  + YG+I               G+GFV+F+    A  AV
Sbjct: 5  SSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64

Query: 55 YELNGKSLLGERVTVE 70
            L    +  +     
Sbjct: 65 TALKASGVQAQMAKQS 80

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 85

 Score = 44.4 bits (106), Expect = 1e-06
 Identities = 18/89 (20%), Positives = 34/89 (38%), Gaps = 9/89 (10%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSS 161
           G        L +  L    + QDL    +  G++    A       + +  G V+F+S S
Sbjct: 1   GSS--GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPS 58

Query: 162 DMKKALDKLDNAELNGRRIRLIEDKPRGG 190
             +KA+  L  + +  +  +  +  P  G
Sbjct: 59  AAQKAVTALKASGVQAQMAK--QSGPSSG 85

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

 Score = 62.1 bits (151), Expect = 2e-12
 Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 13/94 (13%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV 54
            T + +  L Y      L +  + YGR+ DV +          GF FV F D RDA+DA+
Sbjct: 47  MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 106

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGS 88
             ++G  L G  + V++A+       R    + S
Sbjct: 107 DAMDGAVLDGRELRVQMAR-----YGRPPDSHHS 135

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

 Score = 47.8 bits (114), Expect = 2e-07
 Identities = 28/121 (23%), Positives = 41/121 (33%), Gaps = 8/121 (6%)

Query: 76  DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSD---HRLIVENLSSRVSWQDLKD 132
                 G    GS+ A              YG P         L V+NL+ R S   L+ 
Sbjct: 7   HHHHSSGLVPRGSHMASMTGGQQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRR 66

Query: 133 FMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP 187
              + G V      +       R    V F    D + A+D +D A L+GR +R+   + 
Sbjct: 67  VFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARY 126

Query: 188 R 188
            
Sbjct: 127 G 127

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 61.0 bits (148), Expect = 3e-12
 Identities = 22/92 (23%), Positives = 40/92 (43%), Gaps = 12/92 (13%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGR-IRDVILKN---------GFGFVEFEDYRDADDA 53
            +++IGG+P   +  ++ + +      + DVI+           GF FVE+E +R A  A
Sbjct: 9   CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMA 68

Query: 54  VYELNGKS--LLGERVTVEIAKGIDRSQERGR 83
             +L      L G ++ V+ A+      E   
Sbjct: 69  RRKLMPGRIQLWGHQIAVDWAEPEIDVDEDVM 100

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 41.3 bits (97), Expect = 3e-05
 Identities = 19/82 (23%), Positives = 34/82 (41%), Gaps = 9/82 (10%)

Query: 109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGV--VEFESSS 161
            +  + RL +  +      +++ + + +V E       YA A  + +N G   VE+ES  
Sbjct: 4   GSSGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHR 63

Query: 162 DMKKALDKLDNA--ELNGRRIR 181
               A  KL     +L G +I 
Sbjct: 64  AAAMARRKLMPGRIQLWGHQIA 85

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 60.2 bits (147), Expect = 3e-12
 Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 8/78 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
            +++G L   V +  L    K +       +          G+GFV F    DA +A+ 
Sbjct: 2  FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 61

Query: 56 ELNGKSLLGERVTVEIAK 73
           + G+ L G  + +  A 
Sbjct: 62 SMQGQDLNGRPLRINWAA 79

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 46.3 bits (111), Expect = 2e-07
 Identities = 19/81 (23%), Positives = 31/81 (38%), Gaps = 9/81 (11%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRNEGVVEFESSSDMKKAL 167
            L V +L+  V  + L++  +          H          R  G V F S  D + A+
Sbjct: 3   NLFVGDLNVNVDDETLRNAFKDFPSY--LSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM 60

Query: 168 DKLDNAELNGRRIRLIEDKPR 188
           D +   +LNGR +R+      
Sbjct: 61  DSMQGQDLNGRPLRINWAAKL 81

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Length = 105

 Score = 60.8 bits (148), Expect = 3e-12
 Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 13/93 (13%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN------GFGFVEFEDYRDADDAVY 55
             K+++G L     E D+ +  + +G I +  +L+       G  FV+F  + +A  A++
Sbjct: 15  DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIH 74

Query: 56  ELNGKSLL---GERVTVEIAKGIDRSQERGRRG 85
            L+G   +      + V+ A   D  +E G   
Sbjct: 75  ALHGSQTMPGASSSLVVKFA---DTDKESGPSS 104

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Length = 90

 Score = 60.3 bits (147), Expect = 3e-12
 Identities = 18/88 (20%), Positives = 36/88 (40%), Gaps = 9/88 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
           +Y+G L Y      +++    +G++ +V L          GFGFVE ++     +A+ +
Sbjct: 3  NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAK 61

Query: 57 LNGKSLLGERVTVEIAKGIDRSQERGRR 84
          L+    +G  + V  A      +     
Sbjct: 62 LDNTDFMGRTIRVTEANPKKSLEHHHHH 89

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Length = 90

 Score = 46.4 bits (111), Expect = 3e-07
 Identities = 22/89 (24%), Positives = 37/89 (41%), Gaps = 10/89 (11%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRNEGVVEFESSSDMKKAL 167
            + V NL    + + +K+   Q G+V   +         K+ +  G VE      + +A+
Sbjct: 3   NIYVGNLVYSATSEQVKELFSQFGKV--FNVKLIYDRETKKPKGFGFVEM-QEESVSEAI 59

Query: 168 DKLDNAELNGRRIRLIEDKPRGGGRGRSR 196
            KLDN +  GR IR+ E  P+        
Sbjct: 60  AKLDNTDFMGRTIRVTEANPKKSLEHHHH 88

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Length = 106

 Score = 60.4 bits (147), Expect = 4e-12
 Identities = 21/94 (22%), Positives = 41/94 (43%), Gaps = 11/94 (11%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAV 54
             K++IG +P  + E+DL+   + +G+I ++ +LK+       G  F+ + +   A  A 
Sbjct: 13  AIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQ 72

Query: 55  YELNGKSLL---GERVTVEIAKGIDRSQERGRRG 85
             L+ +  L      + V+ A    R       G
Sbjct: 73  SALHEQKTLPGMNRPIQVKPADSESRGGSGPSSG 106

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 63.7 bits (154), Expect = 4e-12
 Identities = 19/100 (19%), Positives = 45/100 (45%), Gaps = 12/100 (12%)

Query: 6   VYIGGLPYGVRERDLEKFV----KGYGRIRDVILKN-----GFGFVEFEDYRDADDAVYE 56
           +YI  L   +++ +L+K +      +G+I D+++       G  FV F++   A +A+  
Sbjct: 12  IYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRS 71

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRR 96
           + G     + + ++ AK      +   +  G++     +R
Sbjct: 72  MQGFPFYDKPMRIQYAK---TDSDIIAKMKGTFVERDRKR 108

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 51.8 bits (123), Expect = 5e-08
 Identities = 16/71 (22%), Positives = 28/71 (39%), Gaps = 4/71 (5%)

Query: 7   YIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLL 63
           ++  LP    E  L      +   ++V L   ++   FVEF++   A  A   L G  + 
Sbjct: 211 FLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHDIAFVEFDNEVQAGAARDALQGFKIT 270

Query: 64  GER-VTVEIAK 73
               + +  AK
Sbjct: 271 QNNAMKISFAK 281

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 46.8 bits (110), Expect = 2e-06
 Identities = 24/142 (16%), Positives = 47/142 (33%), Gaps = 6/142 (4%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMR----QVGEV--CYADAHKRHRNEGVVEFESSS 161
           P TR +H + + NL+ ++   +LK  +     Q G++         + R +  V F+  S
Sbjct: 4   PETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVS 63

Query: 162 DMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKSRSPRSR 221
               AL  +       + +R+   K       + + +      K   R   S+      +
Sbjct: 64  SATNALRSMQGFPFYDKPMRIQYAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPATKK 123

Query: 222 SKSGSPRKSKSKAKSVSRSPSP 243
           +  G        A        P
Sbjct: 124 AVQGGGATPVVGAVQGPVPGMP 145

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

 Score = 62.2 bits (151), Expect = 4e-12
 Identities = 27/115 (23%), Positives = 42/115 (36%), Gaps = 7/115 (6%)

Query: 81  RGRRGYGSYRAPPPRRGWGHDRDDRY---GPPTRSDHRLIVENLSSRVSWQDLKDFMRQV 137
              R     R  P    W HD  D     G    +  +L+V NL   VS  D+++   + 
Sbjct: 53  GRNRPAPYSRPKPLPDKWQHDLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEF 112

Query: 138 GEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
           G +  A        R      V FE  +D  KA+ +     L+GR + +     +
Sbjct: 113 GTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQ 167

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

 Score = 52.9 bits (127), Expect = 8e-09
 Identities = 17/78 (21%), Positives = 34/78 (43%), Gaps = 7/78 (8%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVY 55
           G K+ +  L +GV + D+++    +G ++   +         G   V FE   DA  A+ 
Sbjct: 88  GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMK 147

Query: 56  ELNGKSLLGERVTVEIAK 73
           +  G  L G  + +++  
Sbjct: 148 QYKGVPLDGRPMDIQLVA 165

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Length = 89

 Score = 59.8 bits (146), Expect = 4e-12
 Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 9/79 (11%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAV 54
             +Y+G + YG    +LE    G G +  V IL +       GF ++EF D      ++
Sbjct: 6  ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65

Query: 55 YELNGKSLLGERVTVEIAK 73
            L+     G ++ V   +
Sbjct: 66 -ALDESLFRGRQIKVIPKR 83

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Length = 89

 Score = 42.9 bits (102), Expect = 5e-06
 Identities = 19/86 (22%), Positives = 35/86 (40%), Gaps = 7/86 (8%)

Query: 112 SDHRLI-VENLSSRVSWQDLKDFMRQVGEVCYA----DAH-KRHRNEGVVEFESSSDMKK 165
           +D R I V N+    + ++L+      G V       D      +    +EF     ++ 
Sbjct: 4   ADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRT 63

Query: 166 ALDKLDNAELNGRRIRLIEDKPRGGG 191
           +L  LD +   GR+I++I  +    G
Sbjct: 64  SL-ALDESLFRGRQIKVIPKRTNRPG 88

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 60.0 bits (146), Expect = 5e-12
 Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 9/89 (10%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
             ++G LPY V E  +++F +G       + +         GFG+ EFED      A+  
Sbjct: 17  TAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-S 75

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRG 85
           LN +SL  +R+ V++A            G
Sbjct: 76  LNEESLGNKRIRVDVADQAQDKDSGPSSG 104

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 45.3 bits (108), Expect = 9e-07
 Identities = 21/104 (20%), Positives = 34/104 (32%), Gaps = 6/104 (5%)

Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGE-----VCYADAHKRHRNEG 153
           G         P    +   + NL   V+ + +K+F R +              +R +  G
Sbjct: 1   GSSGSSGSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFG 60

Query: 154 VVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
             EFE    +  AL  L+   L  +RIR+              S
Sbjct: 61  YAEFEDLDSLLSAL-SLNEESLGNKRIRVDVADQAQDKDSGPSS 103

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Length = 129

 Score = 60.9 bits (148), Expect = 5e-12
 Identities = 26/79 (32%), Positives = 35/79 (44%), Gaps = 8/79 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV 54
              + + GL     ERDL +    YG I DV +          GF FV FE+  DA +A 
Sbjct: 46  NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 105

Query: 55  YELNGKSLLGERVTVEIAK 73
              NG  L G R+ V+ + 
Sbjct: 106 ERANGMELDGRRIRVDFSI 124

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Length = 129

 Score = 54.0 bits (130), Expect = 1e-09
 Identities = 29/119 (24%), Positives = 45/119 (37%), Gaps = 7/119 (5%)

Query: 77  RSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSD--HRLIVENLSSRVSWQDLKDFM 134
                G    GS+ A               G     D    L V  LS   + +DL++  
Sbjct: 8   HHHSSGLVPRGSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVF 67

Query: 135 RQVGEVCYA----DAH-KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
            + G +       D   +R R    V FE+  D K+A ++ +  EL+GRRIR+     +
Sbjct: 68  SKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSITK 126

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 59.5 bits (145), Expect = 6e-12
 Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 6/90 (6%)

Query: 2   VGTKVYIGGLPYGVRERDLEKFVKGYGRIRD--VILKN----GFGFVEFEDYRDADDAVY 55
               +Y+  L  G+ +  L K    +G I    V+++     GFGFV F    +A  AV 
Sbjct: 14  QVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVT 73

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
           E+NG+ +  + + V +A+  +  Q     G
Sbjct: 74  EMNGRIVATKPLYVALAQRKEERQSGPSSG 103

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

 Score = 61.9 bits (151), Expect = 7e-12
 Identities = 36/211 (17%), Positives = 68/211 (32%), Gaps = 43/211 (20%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
           K++IGGL +   +  L    + +G + D ++          GFGFV +    +  DA   
Sbjct: 15  KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEV-DAAMN 73

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTR-SDHR 115
                + G  V  +                   RA          R+D   P    +  +
Sbjct: 74  ARPHKVDGRVVEPK-------------------RAVS--------REDSQRPGAHLTVKK 106

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYAD-----AHKRHRNEGVVEFESSSDMKKALDKL 170
           + V  +        L+D+  Q G++   +        + R    V F+    + K + + 
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ- 165

Query: 171 DNAELNGRRIRLIEDKPRGGGRGRSRSSSSR 201
               +NG    + +   +      S S   R
Sbjct: 166 KYHTVNGHNCEVRKALSKQEMASASSSQRGR 196

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 115

 Score = 60.0 bits (146), Expect = 7e-12
 Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 8/79 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV 54
              +Y+  L   V ERDL      +   +   ++         G  F+ F +   A  A+
Sbjct: 25  NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQAL 84

Query: 55  YELNGKSLLGERVTVEIAK 73
           + +NG  L G+ + +E  K
Sbjct: 85  HLVNGYKLYGKILVIEFGK 103

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 115

 Score = 48.1 bits (115), Expect = 1e-07
 Identities = 23/99 (23%), Positives = 40/99 (40%), Gaps = 11/99 (11%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHK-RHRNEGVVEFESSS 161
           G P      L ++NLS RV+ +DL     +  E             R R +  + F +  
Sbjct: 22  GEPN---KVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKE 78

Query: 162 DMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSS 200
              +AL  ++  +L G+ + +   K +   + RS   SS
Sbjct: 79  IAWQALHLVNGYKLYGKILVIEFGKNK---KQRSSGPSS 114

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

 Score = 59.2 bits (144), Expect = 9e-12
 Identities = 21/99 (21%), Positives = 40/99 (40%), Gaps = 16/99 (16%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYE 56
            V++GG+   + E ++  F   YG +++V +         G+GFV F +  D    V  
Sbjct: 10 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIV-- 67

Query: 57 LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPR 95
           +  +  G+++ +  A    R Q         +  P P 
Sbjct: 68 ESQINFHGKKLKLGPAI---RKQNLSTY----HVQPRPL 99

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

 Score = 38.4 bits (90), Expect = 3e-04
 Identities = 16/102 (15%), Positives = 38/102 (37%), Gaps = 14/102 (13%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKL 170
            + V  +  R+   +++ F  + G V       D     +  G V F +  D++K ++  
Sbjct: 11  TVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVES- 69

Query: 171 DNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRS 212
                +G++++L        G    + + S    + R    +
Sbjct: 70  -QINFHGKKLKL--------GPAIRKQNLSTYHVQPRPLIFN 102

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 113

 Score = 59.3 bits (144), Expect = 1e-11
 Identities = 22/99 (22%), Positives = 33/99 (33%), Gaps = 16/99 (16%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN----------------GFGFVEFED 46
            + +Y+ GL   V   DL  F K  G ++                      G   V +ED
Sbjct: 15  NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 74

Query: 47  YRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
              A  AV   +GK   G ++ V +A+           G
Sbjct: 75  PPTAKAAVEWFDGKDFQGSKLKVSLARKKPPMNSGPSSG 113

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 113

 Score = 52.4 bits (126), Expect = 3e-09
 Identities = 23/110 (20%), Positives = 41/110 (37%), Gaps = 14/110 (12%)

Query: 102 RDDRYGPPTRSDHRLI-VENLSSRVSWQDLKDFMRQVGEVC------------YADAHK- 147
                 P   SD+  I V+ L+  V+  DL DF +Q G V             Y D    
Sbjct: 3   SGSSGDPDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETG 62

Query: 148 RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           + + +  V +E     K A++  D  +  G ++++   + +        S
Sbjct: 63  KPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLARKKPPMNSGPSS 112

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C Length = 229

 Score = 62.0 bits (150), Expect = 1e-11
 Identities = 21/124 (16%), Positives = 39/124 (31%), Gaps = 12/124 (9%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK----------NGFGFVEFEDYRDADDA 53
             +YIG L +   + DL + V   G    + +K           GF  V       +   
Sbjct: 69  IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKL 128

Query: 54  VYELNGKSLLGERVTVEIA--KGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTR 111
           +  L  + L G+   V     + + + + + R+   S +     +        R   P  
Sbjct: 129 MDLLPKRELHGQNPVVTPVNKQFLSQFEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQG 188

Query: 112 SDHR 115
              R
Sbjct: 189 GRGR 192

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C Length = 229

 Score = 60.1 bits (145), Expect = 4e-11
 Identities = 22/166 (13%), Positives = 48/166 (28%), Gaps = 8/166 (4%)

Query: 71  IAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSD-HRLIVENLSSRVSWQD 129
           I+   +       R Y     P      G                 L + NL+   + +D
Sbjct: 25  ISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIALYIGNLTWWTTDED 84

Query: 130 LKDFMRQVGEVCYADAH-------KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
           L + +  +G     +          + +   +V   S +  KK +D L   EL+G+   +
Sbjct: 85  LTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVV 144

Query: 183 IEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKSRSPRSRSKSGSPR 228
                +   +   +S  +    +     ++         +     R
Sbjct: 145 TPVNKQFLSQFEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGR 190

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C Length = 90

 Score = 58.4 bits (142), Expect = 1e-11
 Identities = 16/90 (17%), Positives = 29/90 (32%), Gaps = 13/90 (14%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYG--RIRDVILKN--------GFGFVEFEDYRDADDAV 54
           +YIG L +   + DL + V   G   I ++            GF  V       +   +
Sbjct: 3  ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 62

Query: 55 YELNGKSLLGERVTVEIAKGIDRSQERGRR 84
            L  + L G+   V  +    + +     
Sbjct: 63 DLLPKRELHGQNPVVTPSN---KLEHHHHH 89

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C Length = 90

 Score = 51.4 bits (124), Expect = 4e-09
 Identities = 15/88 (17%), Positives = 31/88 (35%), Gaps = 7/88 (7%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRNEGVVEFESSSDMKKA 166
             L + NL+   + +DL + +  +G     +          + +   +V   S +  KK 
Sbjct: 2   IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKL 61

Query: 167 LDKLDNAELNGRRIRLIEDKPRGGGRGR 194
           +D L   EL+G+   +            
Sbjct: 62  MDLLPKRELHGQNPVVTPSNKLEHHHHH 89

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

 Score = 59.5 bits (144), Expect = 2e-11
 Identities = 14/91 (15%), Positives = 28/91 (30%), Gaps = 11/91 (12%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKG----YGRIRDVILKN-----GFGFVEFEDYRDADDAV 54
             V I  +   V +  L+  +       G I D+++       G  ++ F     A   V
Sbjct: 30  QVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFV 89

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
               G    G  + +  ++      +    G
Sbjct: 90  EAFQGYPFQGNPLVITFSET--PQSQVAEDG 118

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

 Score = 49.5 bits (118), Expect = 5e-08
 Identities = 11/99 (11%), Positives = 31/99 (31%), Gaps = 6/99 (6%)

Query: 90  RAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMR----QVGEV--CYA 143
            A   R+           P T     +++ N++  V  + L+  +       G++     
Sbjct: 6   AAKFERQHMDSPDLGSTPPHTEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVV 65

Query: 144 DAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
           D    +  +  + F +    +  ++        G  + +
Sbjct: 66  DLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVI 104

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

 Score = 59.5 bits (144), Expect = 2e-11
 Identities = 20/103 (19%), Positives = 34/103 (33%), Gaps = 14/103 (13%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV---ILKN-------GFGFVEFEDYRDADD 52
              VY+G   +   ++ L + ++  G    V     +N       G+  V          
Sbjct: 55  RAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHK 114

Query: 53  AVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPR 95
            +  L GK L GE+V V  A      Q   +    + +    R
Sbjct: 115 LLELLPGKVLNGEKVDVRPA----TRQNLSQFEAQARKRECVR 153

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

 Score = 53.8 bits (129), Expect = 3e-09
 Identities = 17/125 (13%), Positives = 36/125 (28%), Gaps = 7/125 (5%)

Query: 90  RAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH--- 146
              P            Y         + V + S   + Q L   +R +G     +     
Sbjct: 32  EPSPKPNNKTPAILYTYSGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAE 91

Query: 147 ----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRS 202
                + +    V   S + + K L+ L    LNG ++ +     +   +  +++     
Sbjct: 92  NRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPATRQNLSQFEAQARKREC 151

Query: 203 RSKSR 207
               R
Sbjct: 152 VRVPR 156

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 59.0 bits (143), Expect = 3e-11
 Identities = 24/109 (22%), Positives = 43/109 (39%), Gaps = 8/109 (7%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
              +Y+G L +   E  + +     G I+ +I+          GF FVE+    DA++A+
Sbjct: 39  SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAM 98

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRD 103
             +NG  L    +  +   G    ++ GR   G       R+ +   R 
Sbjct: 99  RYINGTRLDDRIIRTDWDAGFKEGRQYGRGRSGGQVRDEYRQDYDAGRG 147

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 52.1 bits (125), Expect = 1e-08
 Identities = 24/126 (19%), Positives = 40/126 (31%), Gaps = 7/126 (5%)

Query: 92  PPPRRGWGHDRDDRYGPPTRSDH--RLIVENLSSRVSWQDLKDFMRQVGEV-----CYAD 144
              +    H R D             L V NLS   + + + +   + G++         
Sbjct: 16  ELSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDK 75

Query: 145 AHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRS 204
             K       VE+ S +D + A+  ++   L+ R IR   D     GR   R  S     
Sbjct: 76  MKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAGFKEGRQYGRGRSGGQVR 135

Query: 205 KSRSRS 210
               + 
Sbjct: 136 DEYRQD 141

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 59.1 bits (144), Expect = 4e-11
 Identities = 36/194 (18%), Positives = 72/194 (37%), Gaps = 54/194 (27%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV-- 54
           K++IGGL +   E +L ++   YG + D+ +          GFGF+ FE     D+ V  
Sbjct: 5   KMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT 64

Query: 55  -YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSD 113
            + L+GK        ++  + I R ++                             T   
Sbjct: 65  QHILDGK-------VIDPKRAIPRDEQ---------------------------DKTG-- 88

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYAD-----AHKRHRNEGVVEFESSSDMKKALD 168
            ++ V  +   V  ++ ++F  Q G +  A         + R  G V ++S+  + +   
Sbjct: 89  -KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVC- 146

Query: 169 KLDNAELNGRRIRL 182
           +    +   R+I +
Sbjct: 147 QNKFIDFKDRKIEI 160

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 51.8 bits (125), Expect = 1e-08
 Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 9/76 (11%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
           K+++GG+   VR ++ E+F   +G I D  L          GFGFV ++     D    +
Sbjct: 89  KIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVC-Q 147

Query: 57  LNGKSLLGERVTVEIA 72
                    ++ ++ A
Sbjct: 148 NKFIDFKDRKIEIKRA 163

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 57.2 bits (139), Expect = 5e-11
 Identities = 25/89 (28%), Positives = 48/89 (53%), Gaps = 9/89 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
          K+++GG+P+   E +L ++ K +G + +V++          GFGF+ FED +  D AV  
Sbjct: 12 KIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAV-N 70

Query: 57 LNGKSLLGERVTVEIAKGIDRSQERGRRG 85
          ++   ++G++V V+ A+  D        G
Sbjct: 71 MHFHDIMGKKVEVKRAEPRDSKSSGPSSG 99

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 56.5 bits (137), Expect = 5e-11
 Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 3/73 (4%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-GFGFVEFEDYRDADDAVYE-LNGK 60
          T +Y+GGL   + E DL      +G IR + +++     F++F   + A+ A  +  N  
Sbjct: 13 TTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVAAEKSFNKL 72

Query: 61 SLLGERVTVEIAK 73
           + G R+ V+  +
Sbjct: 73 IVNGRRLNVKWGR 85

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 36.9 bits (86), Expect = 7e-04
 Identities = 16/77 (20%), Positives = 33/77 (42%), Gaps = 2/77 (2%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKA 166
               ++   L V  L   ++  DL++   Q GE+       + +    ++F +    + A
Sbjct: 6   SGEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTIT-VVQRQQCAFIQFATRQAAEVA 64

Query: 167 LDKLDN-AELNGRRIRL 182
            +K  N   +NGRR+ +
Sbjct: 65  AEKSFNKLIVNGRRLNV 81

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 56.9 bits (138), Expect = 6e-11
 Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 10/89 (11%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
             Y+G LP+   + D++   K    IR V L          GF +VEF++     +A+  
Sbjct: 17  TAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-T 74

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRG 85
            +G  L    + V+IA+G  + +     G
Sbjct: 75  YDGALLGDRSLRVDIAEGRKQDKSGPSSG 103

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 20/103 (19%), Positives = 34/103 (33%), Gaps = 5/103 (4%)

Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVG----EVCYADAHKRHRNEGV 154
           G         PT   +   V NL       D+    + +      +       + +    
Sbjct: 1   GSSGSSGKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCY 60

Query: 155 VEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           VEF+    +K+AL   D A L  R +R+   + R   +    S
Sbjct: 61  VEFDEVDSLKEAL-TYDGALLGDRSLRVDIAEGRKQDKSGPSS 102

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Length = 115

 Score = 57.0 bits (138), Expect = 9e-11
 Identities = 21/102 (20%), Positives = 44/102 (43%), Gaps = 14/102 (13%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
             V++G L   +   D++     +GRI D  +          G+GFV F +  DA++A+ 
Sbjct: 16  FHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 75

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRG 97
           ++ G+ L G ++        + +  +      +Y +   + G
Sbjct: 76  QMGGQWLGGRQIRT------NWATRKPPAPKSTYESNTKQSG 111

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Length = 115

 Score = 47.3 bits (113), Expect = 2e-07
 Identities = 21/102 (20%), Positives = 42/102 (41%), Gaps = 5/102 (4%)

Query: 110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMK 164
           T +   + V +LS  ++ +D+K      G +  A   K     + +  G V F +  D +
Sbjct: 12  TSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAE 71

Query: 165 KALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKS 206
            A+ ++    L GR+IR      +      +  S+++    S
Sbjct: 72  NAIQQMGGQWLGGRQIRTNWATRKPPAPKSTYESNTKQSGPS 113

>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 = 56.7 bits (137), Expect = 9e-11
 Identities = 15/72 (20%), Positives = 27/72 (37%), Gaps = 2/72 (2%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAVYELNGKS 61
          T +    LP G    ++++    +G +  V+L        VEF +  +A  A   L    
Sbjct: 11 TVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSK 70

Query: 62 LLGERVTVEIAK 73
               + +E A 
Sbjct: 71 FHHVPLYLEWAP 82

>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 = 46.0 bits (109), Expect = 7e-07
 Identities = 12/72 (16%), Positives = 29/72 (40%), Gaps = 1/72 (1%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL 170
           RS   ++ +NL +     ++++   + G +             +VEF    + +KA   L
Sbjct: 8   RSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLL-PEGGITAIVEFLEPLEARKAFRHL 66

Query: 171 DNAELNGRRIRL 182
             ++ +   + L
Sbjct: 67  AYSKFHHVPLYL 78

>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 = 56.5 bits (137), Expect = 1e-10
 Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 10/91 (10%)

Query: 4   TKVYIGGLPYGVRERDL-EKFVKGYGR------IRDVILKNGFGFVEFEDYRDADDAVYE 56
             +Y+G L   V E  + + F +  G       I +    + + FVEF ++RDA  A+  
Sbjct: 16  RTLYVGNLSRDVTEVLILQLFSQ-IGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAA 74

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYG 87
           +NG+ +LG+ V V  A     S ++     G
Sbjct: 75  MNGRKILGKEVKVNWAT--TPSSQKSGPSSG 103

>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 = 43.8 bits (104), Expect = 3e-06
 Identities = 16/93 (17%), Positives = 30/93 (32%), Gaps = 5/93 (5%)

Query: 109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMK 164
                  L V NLS  V+   +     Q+G         +    +     VEF    D  
Sbjct: 11  DDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTS-NDPYCFVEFYEHRDAA 69

Query: 165 KALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
            AL  ++  ++ G+ +++         +    S
Sbjct: 70  AALAAMNGRKILGKEVKVNWATTPSSQKSGPSS 102

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

 Score = 56.1 bits (136), Expect = 1e-10
 Identities = 19/90 (21%), Positives = 32/90 (35%), Gaps = 13/90 (14%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN---GFGFVEFEDYRDADDAV---YEL 57
          + V++G     + E +L +F   YG + DV +      F FV F D + A         +
Sbjct: 6  SGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCGEDLII 65

Query: 58 NGKSLLGERVTVEIAKGIDRSQERGRRGYG 87
           G        +V I+    +         G
Sbjct: 66 KGI-------SVHISNAEPKHNSNSGPSSG 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 = 57.1 bits (138), Expect = 2e-10
 Identities = 19/96 (19%), Positives = 44/96 (45%), Gaps = 10/96 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
           G  +++  +    +E ++++    YG I+++ L          G+  VE+E ++ A  A 
Sbjct: 72  GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAK 131

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYR 90
             LNG  ++G+ + V+      +  +R ++     R
Sbjct: 132 EALNGAEIMGQTIQVDWCF--VKGPKRVKKSEKRRR 165

>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 = 53.7 bits (129), Expect = 3e-09
 Identities = 27/170 (15%), Positives = 60/170 (35%), Gaps = 18/170 (10%)

Query: 43  EFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDR 102
           +  D  +A++   + +G     ++  V + +     + RG     + R          + 
Sbjct: 3   DVLDIDNAEEFEVDEDG-----DQGIVRLKEKAKHRKGRGFGSDSNTREAIHSYERVRNE 57

Query: 103 DDRYGPPTRSD----HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRN 151
           DD    P          L V ++       ++++     GE+   + H          + 
Sbjct: 58  DDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEI--KNIHLNLDRRTGFSKG 115

Query: 152 EGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSR 201
             +VE+E+      A + L+ AE+ G+ I++     +G  R +      R
Sbjct: 116 YALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVKGPKRVKKSEKRRR 165

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Length = 104

 Score = 55.6 bits (134), Expect = 2e-10
 Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 4/72 (5%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAV--YELNGKS 61
          V++ GL   V E DL + ++ +G I  V++        VEFE+   A + V         
Sbjct: 18 VHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVY 77

Query: 62 LLGERVTVEIAK 73
          + G++     + 
Sbjct: 78 IAGQQAFFNYST 89

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Length = 104

 Score = 40.9 bits (96), Expect = 4e-05
 Identities = 16/86 (18%), Positives = 30/86 (34%), Gaps = 6/86 (6%)

Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFE 158
           G          +   H   V  L   V   DL + + + G +CY       + + +VEFE
Sbjct: 4   GSSGSHHKVSVSPVVH---VRGLCESVVEADLVEALEKFGTICYVMMM-PFKRQALVEFE 59

Query: 159 SSSDMKKALD--KLDNAELNGRRIRL 182
           +    K+ +         + G++   
Sbjct: 60  NIDSAKECVTFAADVPVYIAGQQAFF 85

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens} Length = 105

 Score = 55.5 bits (134), Expect = 2e-10
 Identities = 16/89 (17%), Positives = 33/89 (37%), Gaps = 13/89 (14%)

Query: 2   VGTKVYIGGLPYGVRER--DLEKFVKG----YGRIRDVILKN------GFGFVEFEDYRD 49
           + + + +  +P    +R   L+  +      +G+I +           G+ F+E+     
Sbjct: 14  IDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAH 73

Query: 50  ADDAVYELNGKSLLG-ERVTVEIAKGIDR 77
           A DAV   +G  L       V +    D+
Sbjct: 74  AVDAVKNADGYKLDKQHTFRVNLFTDFDK 102

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

 Score = 55.0 bits (133), Expect = 2e-10
 Identities = 14/86 (16%), Positives = 29/86 (33%), Gaps = 14/86 (16%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGR--IRDVIL-KN-------GFGFVEFEDYRDADD 52
             + +  +        +   +  Y    + ++ L K+       GF FV+     DA  
Sbjct: 9  MDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQ 68

Query: 53 AVYELNGK----SLLGERVTVEIAKG 74
           +  L        + G+ + V+ AK 
Sbjct: 69 LLQILQSLHPPLKIDGKTIGVDFAKS 94

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

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 10/78 (12%), Positives = 29/78 (37%), Gaps = 11/78 (14%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAH-------KRHRNEGVVEFESSSDMKKALD 168
           +I+ N++       +   +     +   +         +++R    V+  S+ D  + L 
Sbjct: 12  IILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQ 71

Query: 169 KLDNAE----LNGRRIRL 182
            L +      ++G+ I +
Sbjct: 72  ILQSLHPPLKIDGKTIGV 89

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

 Score = 55.4 bits (134), Expect = 2e-10
 Identities = 20/97 (20%), Positives = 36/97 (37%), Gaps = 14/97 (14%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV 54
           G  V+I  L +   E  L + ++ +G ++ V +          G  F +F     A   +
Sbjct: 15  GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCL 74

Query: 55  ------YELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
                  E  G  L G ++ V++A   D +      G
Sbjct: 75  AAASLEAEGGGLKLDGRQLKVDLAVTRDEAASGPSSG 111

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

 Score = 45.0 bits (107), Expect = 1e-06
 Identities = 15/94 (15%), Positives = 34/94 (36%), Gaps = 11/94 (11%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYAD-----AHKRHRNEGVVEFESSSDMKKALDK 169
            + + NLS     + L + ++Q G++ Y         +  +     +F +    +K L  
Sbjct: 17  TVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAA 76

Query: 170 LDNA------ELNGRRIRLIEDKPRGGGRGRSRS 197
                     +L+GR++++     R        S
Sbjct: 77  ASLEAEGGGLKLDGRQLKVDLAVTRDEAASGPSS 110

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus} Length = 89

 Score = 54.2 bits (131), Expect = 5e-10
 Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 6/66 (9%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN---GFGFVEFEDYRDADDAV---YE 56
          G+KV++G     +   +L++F   YG + DV +      F FV F D + A         
Sbjct: 11 GSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQSLCGEDLI 70

Query: 57 LNGKSL 62
          + G S+
Sbjct: 71 IKGISV 76

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 54.6 bits (132), Expect = 5e-10
 Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 9/77 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYG--RIRDVILKN------GFGFVEFEDYRDADDAVYE 56
            ++G LPY V E  +++F +G     +R     +      GFG+ EFED      A+  
Sbjct: 21 TAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-S 79

Query: 57 LNGKSLLGERVTVEIAK 73
          LN +SL   R+ V++A 
Sbjct: 80 LNEESLGNRRIRVDVAD 96

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 45.3 bits (108), Expect = 8e-07
 Identities = 24/98 (24%), Positives = 36/98 (36%), Gaps = 6/98 (6%)

Query: 96  RGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGE-----VCYADAHKRHR 150
           RG  H    R   P    +   + NL   V+ + +K+F R +              +R +
Sbjct: 2   RGSHHHHHHRSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLK 61

Query: 151 NEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
             G  EFE    +  AL  L+   L  RRIR+      
Sbjct: 62  GFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVDVADQA 98

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

 Score = 54.4 bits (131), Expect = 6e-10
 Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 4/72 (5%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAV--YELNGKS 61
          V+I GL  GV E DL + ++ +G I  V++  K     VEFED   A +AV     N   
Sbjct: 24 VHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQALVEFEDVLGACNAVNYAADNQIY 83

Query: 62 LLGERVTVEIAK 73
          + G    V  + 
Sbjct: 84 IAGHPAFVNYST 95

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

 Score = 42.4 bits (100), Expect = 9e-06
 Identities = 14/94 (14%), Positives = 31/94 (32%), Gaps = 6/94 (6%)

Query: 91  APPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHR 150
                    +  D    P +     + +  L   V   DL + +++ G + Y       +
Sbjct: 2   GHHHHHHMENYDDPHKTPASPV---VHIRGLIDGVVEADLVEALQEFGPISYV-VVMPKK 57

Query: 151 NEGVVEFESSSDMKKALDKL--DNAELNGRRIRL 182
            + +VEFE       A++    +   + G    +
Sbjct: 58  RQALVEFEDVLGACNAVNYAADNQIYIAGHPAFV 91

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 54.7 bits (132), Expect = 6e-10
 Identities = 17/98 (17%), Positives = 35/98 (35%), Gaps = 9/98 (9%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
               +I  +P+ + + D+ +F++G     + +           G   V+F++  DA  + 
Sbjct: 15  KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSE 74

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAP 92
             L+ K L G    V +    D  +            P
Sbjct: 75  -RLHRKKLNGREAFVHVVTLEDMREIEKNPPAQGKSGP 111

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 48.6 bits (116), Expect = 1e-07
 Identities = 19/106 (17%), Positives = 42/106 (39%), Gaps = 10/106 (9%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSS 161
           G    +     + N+   ++  D+  F+  +     A     D + +   + +V+F++  
Sbjct: 9   GDVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNED 68

Query: 162 DMKKALDKLDNAELNGRRIRL----IEDKPRGGGRGRSRSSSSRSR 203
           D +K+  +L   +LNGR   +    +ED         ++  S  S 
Sbjct: 69  DARKSE-RLHRKKLNGREAFVHVVTLEDMREIEKNPPAQGKSGPSS 113

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 53.7 bits (130), Expect = 7e-10
 Identities = 19/77 (24%), Positives = 35/77 (45%), Gaps = 8/77 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
           V++G L   +    +      +GRI D  +          G+GFV F +  DA++A+ +
Sbjct: 8  HVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQ 67

Query: 57 LNGKSLLGERVTVEIAK 73
          + G+ L G ++    A 
Sbjct: 68 MGGQWLGGRQIRTNWAT 84

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 48.3 bits (116), Expect = 6e-08
 Identities = 18/85 (21%), Positives = 33/85 (38%), Gaps = 5/85 (5%)

Query: 109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAH-KRHRNEGVVEFESSSDM 163
           P  S   + V +LS  ++   +       G +  A    D    + +  G V F +  D 
Sbjct: 2   PLGSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDA 61

Query: 164 KKALDKLDNAELNGRRIRLIEDKPR 188
           + A+ ++    L GR+IR      +
Sbjct: 62  ENAIQQMGGQWLGGRQIRTNWATRK 86

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 54.8 bits (132), Expect = 8e-10
 Identities = 25/124 (20%), Positives = 40/124 (32%), Gaps = 7/124 (5%)

Query: 77  RSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQ 136
               RG             RG     D  +   + + H + +  L  + +  D+ +F   
Sbjct: 13  GLVPRGSHMASMTGGQQMGRG---SGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSP 69

Query: 137 VGEVC---YADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRG 193
           +  V          R   E  VEF +  +   A+ K D A +  R I L  +   G   G
Sbjct: 70  LNPVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSK-DRANMQHRYIELFLNSTTGASNG 128

Query: 194 RSRS 197
              S
Sbjct: 129 AYSS 132

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 46.8 bits (111), Expect = 5e-07
 Identities = 20/95 (21%), Positives = 35/95 (36%), Gaps = 11/95 (11%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN------GFGFVEFEDYRDADDAVYE 56
           G  V++ GLPY   E D+  F      +R  I         G   VEF  + +A  A+  
Sbjct: 46  GHCVHMRGLPYKATENDIYNFFSPLNPVRVHIEIGPDGRVTGEADVEFATHEEAVAAM-S 104

Query: 57  LNGKSLLGERVTVEIAKGIDRSQE----RGRRGYG 87
            +  ++    + + +      S      +  +G G
Sbjct: 105 KDRANMQHRYIELFLNSTTGASNGAYSSQVMQGMG 139

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 54.3 bits (131), Expect = 8e-10
 Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 9/77 (11%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILKN-------GFGFVEFEDYRDADDAVYE 56
            VY+G + YG   +DLE      G I  + IL +       G+ ++EF +    D AV  
Sbjct: 38  SVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-A 96

Query: 57  LNGKSLLGERVTVEIAK 73
           ++     G  + V   +
Sbjct: 97  MDETVFRGRTIKVLPKR 113

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 40.9 bits (96), Expect = 6e-05
 Identities = 18/111 (16%), Positives = 37/111 (33%), Gaps = 9/111 (8%)

Query: 91  APPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA----DAH 146
           A           +++     RS   + V N+    + QDL+      G +       D  
Sbjct: 17  AYTEGPPQPLSAEEKKEIDKRS---VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKF 73

Query: 147 -KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSR 196
               +    +EF   + +  A+  +D     GR I+++  +    G   + 
Sbjct: 74  SGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPKRTNMPGISSTD 123

>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens} Length = 81

 Score = 52.8 bits (127), Expect = 1e-09
 Identities = 14/71 (19%), Positives = 28/71 (39%), Gaps = 12/71 (16%)

Query: 4  TKVYIGGLPYGVRER--DLEKFVKG----YGRIRDVILKN------GFGFVEFEDYRDAD 51
          + + +  +P    +R   L+  +      +G+I +           G+ F+E+     A 
Sbjct: 2  SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAV 61

Query: 52 DAVYELNGKSL 62
          DAV   +G  L
Sbjct: 62 DAVKNADGYKL 72

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A Length = 75

 Score = 52.5 bits (127), Expect = 1e-09
 Identities = 14/76 (18%), Positives = 33/76 (43%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
          K+++GGL     E  + ++  G+G +  + L          GF F+ F++       + E
Sbjct: 1  KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM-E 59

Query: 57 LNGKSLLGERVTVEIA 72
              ++   +  +++A
Sbjct: 60 KKYHNVGLSKCEIKVA 75

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 96

 Score = 53.0 bits (128), Expect = 1e-09
 Identities = 20/93 (21%), Positives = 40/93 (43%), Gaps = 15/93 (16%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRD--VILKN-------GFGFVEFEDYRDADDAVY 55
           ++IG L   + E+ L      +G I     I+++       G+ F+ F  +  +D A+ 
Sbjct: 7  GIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIE 66

Query: 56 ELNGKSLLGERVTVEIAKGIDRSQERGRRGYGS 88
           +NG+ L    +TV        + ++  +G G 
Sbjct: 67 AMNGQYLCNRPITV------SYAFKKDSKGSGP 93

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 96

 Score = 40.6 bits (96), Expect = 4e-05
 Identities = 14/94 (14%), Positives = 28/94 (29%), Gaps = 6/94 (6%)

Query: 110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGV------VEFESSSDM 163
           +     + + NL   +  + L D     G +       R  + G       + F S    
Sbjct: 2   SSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDAS 61

Query: 164 KKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
             A++ ++   L  R I +     +        S
Sbjct: 62  DAAIEAMNGQYLCNRPITVSYAFKKDSKGSGPSS 95

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

 Score = 52.5 bits (127), Expect = 1e-09
 Identities = 18/76 (23%), Positives = 35/76 (46%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
          K+++GGL       D++ + + +G++ D +L          GFGFV FE     +    E
Sbjct: 1  KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVC-E 59

Query: 57 LNGKSLLGERVTVEIA 72
          ++   +  + V  + A
Sbjct: 60 IHFHEINNKMVECKKA 75

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 101

 Score = 52.5 bits (126), Expect = 2e-09
 Identities = 12/72 (16%), Positives = 29/72 (40%), Gaps = 4/72 (5%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAV--YELNGKS 61
          ++I  LP  V E ++      +G++ ++++       F+E      A   V  Y      
Sbjct: 18 LHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPH 77

Query: 62 LLGERVTVEIAK 73
          L  + + ++ + 
Sbjct: 78 LRNQPIYIQYSN 89

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 51.9 bits (125), Expect = 3e-09
 Identities = 18/79 (22%), Positives = 34/79 (43%), Gaps = 9/79 (11%)

Query: 2  VGTKVYIGGLPYGVRERDLEKFVKGYGR-------IRDVI--LKNGFGFVEFEDYRDADD 52
          +   +++G L   + E  + +     G        IR+ +  +  G+ FVEF D   A+ 
Sbjct: 8  MAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEK 67

Query: 53 AVYELNGKSLLGERVTVEI 71
           ++++NGK L G       
Sbjct: 68 CLHKINGKPLPGATPAKRF 86

>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 = 51.7 bits (124), Expect = 4e-09
 Identities = 14/78 (17%), Positives = 30/78 (38%), Gaps = 14/78 (17%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------------GFGFVEFEDYRDAD 51
          ++Y+G +P+G+ E  +  F     R+  +                  F F+EF    +  
Sbjct: 8  RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 67

Query: 52 DAVYELNGKSLLGERVTV 69
           A+   +G    G+ + +
Sbjct: 68 QAM-AFDGIIFQGQSLKI 84

>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 = 47.4 bits (113), Expect = 1e-07
 Identities = 17/83 (20%), Positives = 31/83 (37%), Gaps = 11/83 (13%)

Query: 109 PTRSDHRLIVENLSSRVSWQDLKDFMRQV----------GEVCYADAHKRHRNEGVVEFE 158
           P  S  RL V N+   ++ + + DF              G    A    + +N   +EF 
Sbjct: 2   PLGSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFR 61

Query: 159 SSSDMKKALDKLDNAELNGRRIR 181
           S  +  +A+   D     G+ ++
Sbjct: 62  SVDETTQAM-AFDGIIFQGQSLK 83

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 52.3 bits (126), Expect = 4e-09
 Identities = 26/102 (25%), Positives = 46/102 (45%), Gaps = 11/102 (10%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
           TK+++GGLPY   +  L K+ +G+G I + ++          G+GFV   D   A+ A  
Sbjct: 18  TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK 77

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRG 97
           + N   + G +  V +A     ++ R  +   +     P  G
Sbjct: 78  DPNPI-IDGRKANVNLA--YLGAKPRSLQTGFAIGVSGPSSG 116

>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 = 52.2 bits (125), Expect = 4e-09
 Identities = 16/82 (19%), Positives = 33/82 (40%), Gaps = 16/82 (19%)

Query: 6  VYIGGLPYGVRERDL----EKFVKGYGRIRDVILKN-----------GFGFVEFEDYRDA 50
          V++ GL   + + ++    E F K +G+I  V++ N              +V +    DA
Sbjct: 18 VFVVGLSQRLADPEVLKRPEYFGK-FGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDA 76

Query: 51 DDAVYELNGKSLLGERVTVEIA 72
            A+  +N   + G  +   + 
Sbjct: 77 LRAIQCVNNVVVDGRTLKASLG 98

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 51.9 bits (124), Expect = 7e-09
 Identities = 17/85 (20%), Positives = 34/85 (40%), Gaps = 5/85 (5%)

Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAVYELNGKSLL 63
           V  GGL  GV    L   ++  G +  +++     + F  +    ++  A   LNGK ++
Sbjct: 30  VANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVV 89

Query: 64  ---GERVTVEIAKGIDRSQERGRRG 85
              G+++T+ +             G
Sbjct: 90  DDLGQKITLYLNFVEKVQWSGPSSG 114

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 51.3 bits (123), Expect = 8e-09
 Identities = 23/89 (25%), Positives = 35/89 (39%), Gaps = 9/89 (10%)

Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELN 58
           V + G+P+   E D+  F  G  R+  V L        NG G V+F   +D  +A+ + N
Sbjct: 19  VSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KRN 76

Query: 59  GKSLLGERVTVEIAKGIDRSQERGRRGYG 87
              ++   V V  A         G    G
Sbjct: 77  RMLMIQRYVEVSPATERQWVAAGGHITSG 105

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 47.8 bits (114), Expect = 1e-07
 Identities = 21/98 (21%), Positives = 36/98 (36%), Gaps = 4/98 (4%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMR--QVGEVCYA-DAHKRHRNEGVVEFESSSDMK 164
           P    D  + V  +       D++DF    +V  V    D   R+   G+V+F S  D  
Sbjct: 11  PINPDDLYVSVHGMPFSAMENDVRDFFHGLRVDAVHLLKDHVGRNNGNGLVKFLSPQDTF 70

Query: 165 KALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRS 202
           +AL + +   +  R + +     R         +S  S
Sbjct: 71  EALKR-NRMLMIQRYVEVSPATERQWVAAGGHITSGPS 107

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 119

 Score = 51.5 bits (123), Expect = 8e-09
 Identities = 13/72 (18%), Positives = 31/72 (43%), Gaps = 4/72 (5%)

Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAV--YELNGKS 61
           ++I  LP  V E ++      +G++ ++++       F+E      A+  V  Y      
Sbjct: 34  IHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPV 93

Query: 62  LLGERVTVEIAK 73
           L G+ + ++ + 
Sbjct: 94  LRGQPIYIQFSN 105

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 50.9 bits (122), Expect = 9e-09
 Identities = 14/88 (15%), Positives = 34/88 (38%), Gaps = 9/88 (10%)

Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYEL 57
           V + GLP+G  + ++ +F  G   + + +           G  FV+F     A+ A+ + 
Sbjct: 18  VRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKAL-KK 76

Query: 58  NGKSLLGERVTVEIAKGIDRSQERGRRG 85
           + + +    + +  +   +        G
Sbjct: 77  HKERIGHRYIEIFKSSRAEVRTSGPSSG 104

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 46.7 bits (111), Expect = 4e-07
 Identities = 20/95 (21%), Positives = 32/95 (33%), Gaps = 6/95 (6%)

Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEG 153
           G        P T +D  + +  L    S +++  F   +  V        D   R   E 
Sbjct: 1   GSSGSSGNSPDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEA 60

Query: 154 VVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
            V+F S    +KAL K     +  R I + +    
Sbjct: 61  FVQFASQEIAEKALKK-HKERIGHRYIEIFKSSRA 94

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 51.4 bits (123), Expect = 1e-08
 Identities = 20/100 (20%), Positives = 33/100 (33%), Gaps = 9/100 (9%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
           G  VY+ GLP+    + +  F K    + D I           G GFVEF +  D   A+
Sbjct: 25  GFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAAL 84

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPP 94
              + + +    + V         ++           P  
Sbjct: 85  -CRHKQYMGNRFIQVHPITKKGMLEKIDMIRKRLQSGPSS 123

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 47.5 bits (113), Expect = 2e-07
 Identities = 23/127 (18%), Positives = 43/127 (33%), Gaps = 14/127 (11%)

Query: 85  GYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA- 143
           G        P       +  R   P  +   + ++ L      + + DF +++  V  + 
Sbjct: 1   GSSGSSGKSPSGQ----KRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSI 56

Query: 144 ----DAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI----EDKPRGGGRGRS 195
                 + +   EG VEF + +D K AL +     +  R I++     +         R 
Sbjct: 57  YIAYGPNGKATGEGFVEFRNEADYKAALCR-HKQYMGNRFIQVHPITKKGMLEKIDMIRK 115

Query: 196 RSSSSRS 202
           R  S  S
Sbjct: 116 RLQSGPS 122

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

 Score = 50.6 bits (121), Expect = 1e-08
 Identities = 13/72 (18%), Positives = 31/72 (43%), Gaps = 4/72 (5%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAV--YELNGKS 61
          ++I  LP  V E ++      +G++ ++++       F+E      A+  V  Y      
Sbjct: 19 IHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPV 78

Query: 62 LLGERVTVEIAK 73
          L G+ + ++ + 
Sbjct: 79 LRGQPIYIQFSN 90

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A Length = 100

 Score = 50.5 bits (121), Expect = 1e-08
 Identities = 18/91 (19%), Positives = 32/91 (35%), Gaps = 15/91 (16%)

Query: 2  VGTKVYIGGLPY------GVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDY 47
              + + G P        V ++ L       G++ ++            GF FVE    
Sbjct: 5  SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSM 64

Query: 48 RDADDAVYELNGKSLLG-ERVTVEIAKGIDR 77
           DA   +   +GK L    R+ +   K ++R
Sbjct: 65 NDAKKIIKSFHGKRLDLKHRLFLYTMKDVER 95

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A Length = 100

 Score = 37.8 bits (88), Expect = 4e-04
 Identities = 14/84 (16%), Positives = 31/84 (36%), Gaps = 8/84 (9%)

Query: 113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSSDMKKAL 167
           +   ++ +    V  + L     + G+V        +A  + +    VE  S +D KK +
Sbjct: 12  NGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKII 71

Query: 168 DKLDNAELNGR---RIRLIEDKPR 188
                  L+ +    +  ++D  R
Sbjct: 72  KSFHGKRLDLKHRLFLYTMKDVER 95

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

 Score = 49.7 bits (119), Expect = 2e-08
 Identities = 15/76 (19%), Positives = 31/76 (40%), Gaps = 8/76 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------GFGFVEFEDYRDADDAVYEL 57
           VYI G P      D++++++  G++ ++ ++        G  FV F+    A   V E 
Sbjct: 13 SVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV-ET 71

Query: 58 NGKSLLGERVTVEIAK 73
           G+      + +    
Sbjct: 72 PGQKYKETDLLILFKD 87

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Length = 143

 Score = 50.6 bits (121), Expect = 2e-08
 Identities = 22/97 (22%), Positives = 40/97 (41%), Gaps = 15/97 (15%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKN-----GFGFVEFEDYRD 49
             ++Y+  L   V+E+DL+     Y            D+ L       G  F+   + + 
Sbjct: 45  NCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKA 104

Query: 50  ADDAVYELNGKSLLGERVTVEIAKGID--RSQERGRR 84
           A  A+ E NG  L G+ + V+ A+     +  + G+R
Sbjct: 105 AAKALKEANGYVLFGKPMVVQFARSARPKQDPKEGKR 141

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Length = 143

 Score = 45.2 bits (107), Expect = 2e-06
 Identities = 15/90 (16%), Positives = 32/90 (35%), Gaps = 10/90 (11%)

Query: 109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----------RHRNEGVVEFE 158
           P   + R+ V+NL+  V  +DLK    +  +                  R + +  +   
Sbjct: 41  PGEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLP 100

Query: 159 SSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
           +     KAL + +   L G+ + +   +  
Sbjct: 101 NEKAAAKALKEANGYVLFGKPMVVQFARSA 130

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 49.5 bits (119), Expect = 3e-08
 Identities = 18/90 (20%), Positives = 36/90 (40%), Gaps = 10/90 (11%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
           + + + GLP+   E+DL+++   +G +  V +K         GFGFV F +Y      + 
Sbjct: 16  SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS 75

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
           + +   + G     ++             G
Sbjct: 76  QRH--MIDGRWCDCKLPNSKQSQDSGPSSG 103

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

 Score = 48.6 bits (117), Expect = 4e-08
 Identities = 17/76 (22%), Positives = 35/76 (46%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
          K++IGGL +   +  L ++   +G +++ ++          GFGFV F D    D  +  
Sbjct: 2  KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL-A 60

Query: 57 LNGKSLLGERVTVEIA 72
           +   L  + +  ++A
Sbjct: 61 QSRHELDSKTIDPKVA 76

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 49.2 bits (118), Expect = 4e-08
 Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 9/89 (10%)

Query: 6   VYIGGLPYGVRERDL-EKFVKGYGRIRDV-ILKN------GFGFVEFEDYRDADDAVYEL 57
           +++G L   V +  L E FVK Y   R   ++ +      G+GFV+F D  +   A+ E 
Sbjct: 12  LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTEC 71

Query: 58  NGKSLLGER-VTVEIAKGIDRSQERGRRG 85
            G   LG + V + +A       +    G
Sbjct: 72  QGAVGLGSKPVRLSVAIPKASRVKPVESG 100

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 48.5 bits (116), Expect = 7e-08
 Identities = 20/102 (19%), Positives = 34/102 (33%), Gaps = 4/102 (3%)

Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEV---CYADAHKRHRNEGVV 155
           G          + + H + +  L  R +  D+ +F   +  +          R   E  V
Sbjct: 1   GSSGSSGSSFQSTTGHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADV 60

Query: 156 EFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           EF +  D   A+ K D A +  R + L  +   G       S
Sbjct: 61  EFATHEDAVAAMAK-DKANMQHRYVELFLNSTAGTSGSGPSS 101

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 47.8 bits (114), Expect = 1e-07
 Identities = 21/89 (23%), Positives = 32/89 (35%), Gaps = 7/89 (7%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN------GFGFVEFEDYRDADDAVYE 56
           G  V++ GLPY   E D+  F      +R  I         G   VEF  + DA  A+  
Sbjct: 15  GHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAM-A 73

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRG 85
            +  ++    V + +      S      G
Sbjct: 74  KDKANMQHRYVELFLNSTAGTSGSGPSSG 102

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 47.7 bits (114), Expect = 1e-07
 Identities = 17/77 (22%), Positives = 36/77 (46%), Gaps = 7/77 (9%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN------GFGFVEFEDYRDADDAVYE 56
             V + G P+ V E+++ +F+     +   I++N      G+ FV+F +  +   A+ +
Sbjct: 10 CHTVKLRGAPFNVTEKNVMEFLAPLKPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQAL-K 68

Query: 57 LNGKSLLGERVTVEIAK 73
           N + + G  + V   K
Sbjct: 69 CNREYMGGRYIEVFREK 85

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 45.4 bits (108), Expect = 8e-07
 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 4/84 (4%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVC---YADAHKRHRNEGVVEFESSSDM 163
           G    + H + +      V+ +++ +F+  +  V      +AH        V+F +  ++
Sbjct: 4   GSSGTTCHTVKLRGAPFNVTEKNVMEFLAPLKPVAIRIVRNAHGNKTGYIFVDFSNEEEV 63

Query: 164 KKALDKLDNAELNGRRIRLIEDKP 187
           K+AL   +   + GR I +  +K 
Sbjct: 64  KQALKC-NREYMGGRYIEVFREKS 86

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Length = 193

 Score = 49.8 bits (118), Expect = 1e-07
 Identities = 13/116 (11%), Positives = 35/116 (30%), Gaps = 5/116 (4%)

Query: 71  IAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDL 130
           I + + +S+                                 +  + ++   +  +  D+
Sbjct: 67  IVEALSKSKAELMEISEDKTKIRRSPSKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDI 126

Query: 131 KDFMRQVGEVCYA----DAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
           K+++   G+V         HK  +    V F+S    KK ++     +     + +
Sbjct: 127 KEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETP-GQKYKETDLLI 181

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Length = 193

 Score = 45.6 bits (107), Expect = 3e-06
 Identities = 15/80 (18%), Positives = 32/80 (40%), Gaps = 8/80 (10%)

Query: 1   MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDA 53
           +    VYI G P      D++++++  G++ ++ ++        G  FV F+    A   
Sbjct: 107 VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKF 166

Query: 54  VYELNGKSLLGERVTVEIAK 73
           V E  G+      + +    
Sbjct: 167 V-ETPGQKYKETDLLILFKD 185

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 105

 Score = 48.0 bits (115), Expect = 1e-07
 Identities = 18/90 (20%), Positives = 33/90 (36%), Gaps = 9/90 (10%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
            K+++GGL +   +  L  +   YG + D ++          GFGFV+F+D       + 
Sbjct: 17  GKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVL- 75

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
                +L G  +  +              G
Sbjct: 76  ASRPHTLDGRNIDPKPCTPRGMQPSGPSSG 105

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 48.0 bits (115), Expect = 1e-07
 Identities = 23/90 (25%), Positives = 38/90 (42%), Gaps = 9/90 (10%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
            K++IGGL +   E  L  + + +G++ D ++          GFGFV F    + D A+ 
Sbjct: 28  RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM- 86

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
                S+ G  V  + A   + S      G
Sbjct: 87  AARPHSIDGRVVEPKRAVAREESGSGPSSG 116

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 48.0 bits (114), Expect = 1e-07
 Identities = 20/102 (19%), Positives = 35/102 (34%), Gaps = 11/102 (10%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----------KNGFGFVEFEDYRDADD 52
           G  V + GLP+     D++ F+        V            ++G  FVE E   D   
Sbjct: 17  GYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKL 76

Query: 53  AVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPP 94
           A+ + + +S+    + V  +   +        G  S   P  
Sbjct: 77  AL-KKDRESMGHRYIEVFKSHRTEMDWVLKHSGPNSASGPSS 117

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 40.3 bits (94), Expect = 8e-05
 Identities = 21/93 (22%), Positives = 32/93 (34%), Gaps = 8/93 (8%)

Query: 97  GWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-------DAHKRH 149
           G         GP     + + +  L    S +D+++F+                    R 
Sbjct: 1   GSSGSSGMMLGPEGGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQ 60

Query: 150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
             E  VE ES  D+K AL K D   +  R I +
Sbjct: 61  SGEAFVELESEDDVKLALKK-DRESMGHRYIEV 92

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score = 48.3 bits (115), Expect = 2e-07
 Identities = 17/115 (14%), Positives = 32/115 (27%), Gaps = 7/115 (6%)

Query: 74  GIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLI-VENLSSRVSWQDLKD 132
           G          G     +       G            ++   + +  L    + +++  
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMASMTGGQQMGRGSNSADSANDGFVRLRGLPFGCTKEEIVQ 61

Query: 133 FMRQVGEVCYA-----DAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
           F   +  V        D   +   E  V+F S    +KAL K     +  R I +
Sbjct: 62  FFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGK-HKERIGHRYIEV 115

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score = 48.3 bits (115), Expect = 2e-07
 Identities = 15/79 (18%), Positives = 31/79 (39%), Gaps = 9/79 (11%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
              V + GLP+G  + ++ +F  G   + + I           G  FV+F     A+ A+
Sbjct: 42  DGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKAL 101

Query: 55  YELNGKSLLGERVTVEIAK 73
              + + +    + V  + 
Sbjct: 102 -GKHKERIGHRYIEVFKSS 119

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A Length = 87

 Score = 46.4 bits (111), Expect = 3e-07
 Identities = 17/69 (24%), Positives = 35/69 (50%), Gaps = 12/69 (17%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAV- 54
           K+++GGL +   ++DL+ +   +G + D  +K         GFGF+ F+D    +  + 
Sbjct: 12 GKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLD 71

Query: 55 ---YELNGK 60
             + L+G+
Sbjct: 72 QKEHRLDGR 80

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus} Length = 109

 Score = 45.3 bits (108), Expect = 1e-06
 Identities = 17/78 (21%), Positives = 35/78 (44%), Gaps = 9/78 (11%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
            K++IGGL +   +  L ++   +G +++ ++          GFGFV F D    D  + 
Sbjct: 26  CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL- 84

Query: 56  ELNGKSLLGERVTVEIAK 73
             +   L  + +  ++A 
Sbjct: 85  AQSRHELDSKTIDPKVAF 102

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 45.6 bits (108), Expect = 1e-06
 Identities = 16/94 (17%), Positives = 28/94 (29%), Gaps = 12/94 (12%)

Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDVIL-----------KNGFGFVEFEDYRDADDAV 54
           V + GLP+     ++  F   +  I                  G  FV F     A +A+
Sbjct: 26  VRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNAL 85

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRGYGS 88
              +   L    + +  +   +  Q   R    S
Sbjct: 86  -RKHKDLLGKRYIELFRSTAAEVQQVLNRFSSAS 118

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 41.0 bits (96), Expect = 4e-05
 Identities = 19/117 (16%), Positives = 33/117 (28%), Gaps = 9/117 (7%)

Query: 96  RGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA--------DAHK 147
            G G   +        +   + +  L    + +++  F  Q   +               
Sbjct: 6   SGGGTSNEVAQFLSKENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDG 65

Query: 148 RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRS 204
           R   +  V F      + AL K     L  R I L         +  +R SS+   S
Sbjct: 66  RPTGDAFVLFACEEYAQNALRK-HKDLLGKRYIELFRSTAAEVQQVLNRFSSASGPS 121

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score = 44.8 bits (106), Expect = 2e-06
 Identities = 14/91 (15%), Positives = 23/91 (25%), Gaps = 11/91 (12%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----------KNGFGFVEFEDYRDADD 52
              +   GLP+     D+  F                      + G   +E E  +D   
Sbjct: 11  VFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQK 70

Query: 53  AVYELNGKSLLGERVTVEIAKGIDRSQERGR 83
           A+ E +   +    V V      D       
Sbjct: 71  AL-EKHRMYMGQRYVEVYEINNEDVDALMKS 100

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score = 38.3 bits (89), Expect = 3e-04
 Identities = 13/82 (15%), Positives = 30/82 (36%), Gaps = 8/82 (9%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-------DAHKRHRNEGVVEFESS 160
                   +  + L    + +D+ +F                 +   + R + ++E ES 
Sbjct: 6   EEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESE 65

Query: 161 SDMKKALDKLDNAELNGRRIRL 182
            D++KAL+K     +  R + +
Sbjct: 66  QDVQKALEK-HRMYMGQRYVEV 86

>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 Length = 112

 Score = 42.6 bits (100), Expect = 1e-05
 Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 5/73 (6%)

Query: 6   VYIGGLPY-GVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAV--YELNGK 60
           +++  LP+ G  +  + K  + YG+I++ IL       F+E E   DA   V        
Sbjct: 28  IHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKAL 87

Query: 61  SLLGERVTVEIAK 73
              G  V V++++
Sbjct: 88  WFQGRCVKVDLSE 100

>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 Length = 96

 Score = 41.1 bits (96), Expect = 3e-05
 Identities = 17/81 (20%), Positives = 38/81 (46%), Gaps = 9/81 (11%)

Query: 3  GTKVYIGGLPYGVRERDLEKFV----KGYGRIRDVILK-----NGFGFVEFEDYRDADDA 53
          G  V +  + Y +  ++L++ +      +G+++ V L           V+ E+ +DA  A
Sbjct: 9  GADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGA 68

Query: 54 VYELNGKSLLGERVTVEIAKG 74
          V  L+   +  +++ V +A G
Sbjct: 69 VNSLHRYKIGSKKILVSLATG 89

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 41.9 bits (98), Expect = 3e-05
 Identities = 16/93 (17%), Positives = 31/93 (33%), Gaps = 11/93 (11%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----------KNGFGFVEFEDYRDADD 52
           G  V + GLP+     D++ F+                     ++G  FVE     D   
Sbjct: 44  GFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKM 103

Query: 53  AVYELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
           A+ + + +S+    + V  +   +        G
Sbjct: 104 AL-KKDRESMGHRYIEVFKSHRTEMDWVLKHSG 135

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 39.2 bits (91), Expect = 2e-04
 Identities = 23/119 (19%), Positives = 34/119 (28%), Gaps = 11/119 (9%)

Query: 74  GIDRSQERGRRGYGSYRAPPPRRGWGHDRD---DRYGPPTRSDHRLIVENLSSRVSWQDL 130
           G          G     +       G          GP       + +  L    S +D+
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMASMTGGQQMGRGSMMLGPEGGEGFVVKLRGLPWSCSVEDV 61

Query: 131 KDFMRQVGEVCYA-------DAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL 182
           ++F+        A           R   E  VE  S  D+K AL K D   +  R I +
Sbjct: 62  QNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALKK-DRESMGHRYIEV 119

>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 Length = 102

 Score = 40.2 bits (94), Expect = 5e-05
 Identities = 18/73 (24%), Positives = 31/73 (42%), Gaps = 5/73 (6%)

Query: 6  VYIGGLPYGV-RERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAV--YELNGK 60
          V+I     G      L + V+ +G I + ++  K    F+E     DA  AV  Y     
Sbjct: 18 VHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPA 77

Query: 61 SLLGERVTVEIAK 73
           + G+ V V +++
Sbjct: 78 LVFGKPVRVHLSQ 90

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A* Length = 437

 Score = 41.8 bits (97), Expect = 1e-04
 Identities = 47/263 (17%), Positives = 80/263 (30%), Gaps = 8/263 (3%)

Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYEL 57
           +++  + Y   E  L +  + YG I+ + +          G+ F+E+E  RD   A    
Sbjct: 105 LFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHA 164

Query: 58  NGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLI 117
           +GK + G RV V++ +G      R RR  G            + R       +R D R  
Sbjct: 165 DGKKIDGRRVLVDVERGRTVKGWRPRRLGGGLGGTRRGGADVNIRHSGRDDTSRYDERPG 224

Query: 118 VENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNG 177
              L  R   +D +   R+       +  +R          S S  K+   +      + 
Sbjct: 225 PSPLPHRDRDRDRERERRERSRERDKERERRRSRSRDRRRRSRSRDKEERRRSRERSKDK 284

Query: 178 RRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKSRSPRSRSKSGSPRKSKSKAKSV 237
            R R            R R      R      +  S++                      
Sbjct: 285 DRDRKRRSSRSRERARRERERKEELRGGGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPE 344

Query: 238 SRSPSPSKTRKRSRSRSDSRARK 260
            +     + R+RS      R R 
Sbjct: 345 EKGRDRDRERRRSHRSERERRRD 367

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A Length = 164

 Score = 40.5 bits (94), Expect = 1e-04
 Identities = 15/70 (21%), Positives = 29/70 (41%), Gaps = 4/70 (5%)

Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNGF-GFVEFEDYRDADDAVYELNGKS 61
           + +  L Y V    L +    +G +  +I     N F   +++ D   A  A   L+G++
Sbjct: 49  IIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQN 108

Query: 62  LLGERVTVEI 71
           +     T+ I
Sbjct: 109 IYNACCTLRI 118

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

 Score = 37.6 bits (87), Expect = 5e-04
 Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 9/70 (12%)

Query: 2  VGTKVYIGGLPYGVRERDLEKF-----VKGYGRIRDVILKNGFGFVEFEDYRDADDAV-- 54
           G  V + GLP  V +  L  +       G G +         G + F +  DA+  +  
Sbjct: 7  GGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLGCGGVLTFREPADAERVLAQ 66

Query: 55 --YELNGKSL 62
            +EL+G  L
Sbjct: 67 ADHELHGAQL 76

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A Length = 130

 Score = 38.1 bits (88), Expect = 5e-04
 Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 4/70 (5%)

Query: 6   VYIGGLPYGVRERDLEKFVKGYGRIRDVIL----KNGFGFVEFEDYRDADDAVYELNGKS 61
           + +  L Y V    L +    +G +  +I           +++ D   A  A   L+G++
Sbjct: 31  IIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQN 90

Query: 62  LLGERVTVEI 71
           +     T+ I
Sbjct: 91  IYNACCTLRI 100

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 124

 Score = 37.7 bits (87), Expect = 6e-04
 Identities = 18/68 (26%), Positives = 30/68 (44%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAE 174
            L ++N    ++   L      VG+V      KR+  + +VEFES    +KA   L+ A+
Sbjct: 27  LLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKRNGIQAMVEFESVLCAQKAKAALNGAD 86

Query: 175 LNGRRIRL 182
           +      L
Sbjct: 87  IYAGCCTL 94

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3 Length = 104

 Score = 37.2 bits (86), Expect = 7e-04
 Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 7/61 (11%)

Query: 17  ERDLEKFVKGYGRIRDV-ILKN------GFGFVEFEDYRDADDAVYELNGKSLLGERVTV 69
           E    +  + YG + ++ +  N      G  +V+F    DA+ AV +LN +   G+ +  
Sbjct: 41  EEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHA 100

Query: 70  E 70
           E
Sbjct: 101 E 101

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	262
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	100.0
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	100.0
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	100.0
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	100.0
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	100.0
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	100.0
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	100.0
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	100.0
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	100.0
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	100.0
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	100.0
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	100.0
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	100.0
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	100.0
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	100.0
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.98
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.97
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.97
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.97
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.97
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.92
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.89
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.89
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.89
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.89
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.88
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.87
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.87
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.86
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.86
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.85
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.85
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.85
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.85
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.85
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.85
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.84
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.84
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.84
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.84
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.84
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.84
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.84
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.84
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.84
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.84
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.84
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.84
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.84
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.83
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.83
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.83
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.83
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.83
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.83
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.83
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.83
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.83
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.83
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.83
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.82
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.82
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.82
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.82
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.82
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.82
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.82
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.82
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.82
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.82
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.82
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.82
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.82
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.82
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.82
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.82
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.82
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.82
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.81
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.81
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.81
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.81
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.81
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.81
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.81
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.81
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.81
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.81
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.81
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.81
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.81
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.81
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.81
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.81
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.81
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.81
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.8
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.8
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.8
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.8
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.8
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.8
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.8
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.8
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.8
2div_A	99	TRNA selenocysteine associated protein; structural	99.8
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.8
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.8
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.8
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.8
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.8
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.8
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.79
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.79
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.79
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.79
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.79
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.79
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.79
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.79
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.79
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.79
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.79
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.79
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.78
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.78
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.78
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.78
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.78
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.78
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.78
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.78
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.78
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.78
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.78
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.78
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.78
1x5p_A	97	Negative elongation factor E; structure genomics,	99.78
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.78
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.78
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.78
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.77
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.77
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.77
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.77
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.77
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.77
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.77
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.77
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.77
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.77
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.77
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.77
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.77
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.77
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.77
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.77
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.77
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.76
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.76
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.76
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.76
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.76
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.76
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.76
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.76
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.75
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.75
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.75
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.75
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.75
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.75
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.75
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.75
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.75
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.75
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.75
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.75
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.74
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.74
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.74
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.74
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.74
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.74
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.73
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.73
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.73
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.73
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.73
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.73
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.73
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.73
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.73
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.73
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.73
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.73
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.72
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.72
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.72
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.72
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.72
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.72
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.72
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.72
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.72
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.72
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.72
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.72
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.72
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.72
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.72
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.72
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.72
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.72
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.71
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.71
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.71
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.71
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.71
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.71
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.71
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.71
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.71
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.71
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.71
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.71
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.71
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.71
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.71
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.54
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.71
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.71
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.7
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.7
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.7
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.7
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.7
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.7
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.7
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.7
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.7
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.7
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.69
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.69
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.69
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.69
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.69
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.69
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.69
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.69
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.69
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.69
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.69
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.69
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.69
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.69
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.69
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.68
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.68
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.68
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.68
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.68
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.68
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.68
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.68
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.68
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.68
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.68
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.68
2div_A	99	TRNA selenocysteine associated protein; structural	99.68
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.68
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.67
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.67
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.67
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.67
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.67
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.67
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.67
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.67
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.67
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.67
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.67
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.66
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.66
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.66
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.66
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.66
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.66
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.66
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.66
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.66
1x5p_A	97	Negative elongation factor E; structure genomics,	99.66
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.66
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.66
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.65
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.65
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.65
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.65
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.65
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.65
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.65
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.65
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.65
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.65
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.65
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.65
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.64
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.64
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.64
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.64
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.64
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.64
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.64
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.64
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.64
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.64
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.64
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.64
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.64
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.64
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.64
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.63
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.63
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.63
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.63
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.63
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.62
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.62
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.62
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.62
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.62
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.62
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.62
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.62
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.61
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.61
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.61
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.6
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.6
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.6
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.59
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.59
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.58
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.58
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.58
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.58
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.58
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.57
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.57
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.56
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.55
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.32
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.55
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.54
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.53
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.53
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.52
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.51
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.51
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.5
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.49
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.47
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.47
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.47
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.46
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.43
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.43
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.39
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.36
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	99.36
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.31
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.31
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.3
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.28
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	99.19
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.18
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	99.17
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.97
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.96
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	98.84
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.77
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.61
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.57
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	98.49
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	98.36
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	98.09
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	98.06
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	98.03
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	98.0
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.86
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	97.81
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	97.63
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	97.39
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	97.27
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	97.26
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	97.18
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	96.89
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	96.82
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	96.32
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.92
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	95.76
2g0c_A	76	ATP-dependent RNA helicase DBPA; RNA recognition m	95.13
4eyt_A	129	Telomerase associated protein P65; RNA, LA protein	93.9
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	90.49

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

Probab=100.00  E-value=2e-35  Score=227.00  Aligned_cols=156  Identities=21%  Similarity=0.318  Sum_probs=140.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ++||||+|||+++|+++|+++|+.||+|..|.|.        +|||||+|.+.++|+.||+.|++..+.|+.|.+.++..
T Consensus        15 ~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~~~   94 (213)
T 4f02_A           15 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQR   94 (213)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCcccccccccc
Confidence            5799999999999999999999999999999983        68999999999999999999999999999999998865


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc---cCCCc
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH---KRHRN  151 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~~~  151 (262)
                      ......                              ....+|||+|||..+++++|.++|+.||.|..+.+.   +..+|
T Consensus        95 ~~~~~~------------------------------~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~~~g  144 (213)
T 4f02_A           95 DPSLRK------------------------------SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKG  144 (213)
T ss_dssp             CTHHHH------------------------------HCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEE
T ss_pred             cccccc------------------------------cccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCCCce
Confidence            432221                              113489999999999999999999999999999886   33578


Q ss_pred             eEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        152 EGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       152 ~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +|||+|.+.++|.+|++.|||..|+|+.|.|.++.++
T Consensus       145 ~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~~~  181 (213)
T 4f02_A          145 YGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR  181 (213)
T ss_dssp             EEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCH
T ss_pred             EEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            9999999999999999999999999999999998765

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=100.00  E-value=1.3e-34  Score=220.26  Aligned_cols=187  Identities=21%  Similarity=0.256  Sum_probs=148.7

Q ss_pred             CccceEEEcCCCC-CCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          1 MVGTKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         1 ~~~~~l~V~nl~~-~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      |.+++|||+|||+ .+|+++|+++|+.||.|..|.+.   +|||||+|.++++|+.|+..|+|..|.|+.|.|.++....
T Consensus         1 m~~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~~~   80 (198)
T 1qm9_A            1 MGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQN   80 (198)
T ss_dssp             CCCCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTCSSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCCCS
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecCCC
Confidence            6789999999999 99999999999999999999995   7999999999999999999999999999999999998653


Q ss_pred             cccccCCCCC----CCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCC-ceEEEecccCCCc
Q psy10320         77 RSQERGRRGY----GSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAHKRHRN  151 (262)
Q Consensus        77 ~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g-~i~~~~~~~~~~~  151 (262)
                      ..........    ......+..... ............+..+|||+|||..+++++|.++|+.|| .|..+.+....+|
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~r~~-~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~~~g  159 (198)
T 1qm9_A           81 VQLPREGQEDQGLTKDYGNSPLHRFK-KPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRK  159 (198)
T ss_dssp             CCCSSSSSSSSSCEEESSCCCTTSSS-SCCCCCCSCCCCCCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESSTTSS
T ss_pred             cCCCCcCCccccccccccCCchhhcc-CccccccccCCCCccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeCCCc
Confidence            2221111000    000000000100 000111111223467999999999999999999999999 9999999777789


Q ss_pred             eEEEEecCHHHHHHHHHHhCCcccC-CceEEEeecCCC
Q psy10320        152 EGVVEFESSSDMKKALDKLDNAELN-GRRIRLIEDKPR  188 (262)
Q Consensus       152 ~~~v~f~~~~~a~~a~~~l~g~~~~-g~~~~v~~~~~~  188 (262)
                      +|||+|.+.++|..|+..|+|..++ |+.|.|.++++.
T Consensus       160 ~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~~  197 (198)
T 1qm9_A          160 MALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKST  197 (198)
T ss_dssp             CEEEECSSHHHHHHHHHHHTSSCCSSCCSCCEEEECCC
T ss_pred             EEEEEeCCHHHHHHHHHHhcCCccCCCCeEEEEeeccc
Confidence            9999999999999999999999999 999999998753

>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=100.00  E-value=8.8e-34  Score=220.20  Aligned_cols=185  Identities=21%  Similarity=0.255  Sum_probs=146.1

Q ss_pred             cceEEEcCCCC-CCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcc
Q psy10320          3 GTKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         3 ~~~l~V~nl~~-~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~   78 (262)
                      +++|||+|||+ .+|+++|+++|+.||.|..|.|.   +|||||+|.++++|+.|++.|+|..|.|+.|.|.++......
T Consensus        34 ~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~~~~~~  113 (229)
T 2adc_A           34 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQ  113 (229)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCCCCC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCcccc
Confidence            57999999999 99999999999999999999996   799999999999999999999999999999999999765322


Q ss_pred             cccCCCC----CCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCC-ceEEEecccCCCceE
Q psy10320         79 QERGRRG----YGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAHKRHRNEG  153 (262)
Q Consensus        79 ~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g-~i~~~~~~~~~~~~~  153 (262)
                      .......    .......+....... ..........+..+|||+|||..+++++|+++|+.|| .|..+.+....+++|
T Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~g~a  192 (229)
T 2adc_A          114 LPREGQEDQGLTKDYGNSPLHRFKKP-GSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMA  192 (229)
T ss_dssp             CCCSSSSTTTTEEECTTCSSCCCCST-TSGGGTTCCCSCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSSTTCE
T ss_pred             CccccccccccccccccCcccccCCc-cccccccCCCCCCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEECCCcEE
Confidence            1110000    000000000000000 0000111123467999999999999999999999999 999999977778999


Q ss_pred             EEEecCHHHHHHHHHHhCCcccC-CceEEEeecCCC
Q psy10320        154 VVEFESSSDMKKALDKLDNAELN-GRRIRLIEDKPR  188 (262)
Q Consensus       154 ~v~f~~~~~a~~a~~~l~g~~~~-g~~~~v~~~~~~  188 (262)
                      ||+|.+.++|.+|+..|+|..+. |+.|.|.++++.
T Consensus       193 fV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~~~  228 (229)
T 2adc_A          193 LIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKST  228 (229)
T ss_dssp             EEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSSC
T ss_pred             EEEECCHHHHHHHHHHHCCCccCCCCeEEEEEecCC
Confidence            99999999999999999999999 999999998753

>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=100.00  E-value=8.4e-34  Score=210.19  Aligned_cols=152  Identities=22%  Similarity=0.382  Sum_probs=136.7

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      ..++|||+|||+.+|+++|+++|+.||+|..|.+.        +|||||+|.++++|+.|++.|+|..+.|+.|.|.++.
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   81 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   81 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecC
Confidence            46899999999999999999999999999999983        5899999999999999999999999999999999987


Q ss_pred             CCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----C
Q psy10320         74 GIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----R  148 (262)
Q Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~  148 (262)
                      +...                                .....+|||+|||..+++++|.++|+.||.|..+.+..     .
T Consensus        82 ~~~~--------------------------------~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~  129 (168)
T 1b7f_A           82 PGGE--------------------------------SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGR  129 (168)
T ss_dssp             CCSS--------------------------------TTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCC
T ss_pred             CCcc--------------------------------cCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCC
Confidence            5321                                11256999999999999999999999999999988763     3


Q ss_pred             CCceEEEEecCHHHHHHHHHHhCCcccCC--ceEEEeec
Q psy10320        149 HRNEGVVEFESSSDMKKALDKLDNAELNG--RRIRLIED  185 (262)
Q Consensus       149 ~~~~~~v~f~~~~~a~~a~~~l~g~~~~g--~~~~v~~~  185 (262)
                      ++|+|||+|.+.++|.+|+..|+|..+.|  +.|.|.++
T Consensus       130 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~V~~A  168 (168)
T 1b7f_A          130 PRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA  168 (168)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEEEEeC
Confidence            46899999999999999999999999988  88998764

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

Probab=100.00  E-value=5.4e-34  Score=210.76  Aligned_cols=154  Identities=25%  Similarity=0.396  Sum_probs=138.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .+|||+|||+++|+++|+++|+.||+|..|.+.       +|||||+|.+.++|..|++.|+|..+.|+.|.|.++....
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~~~   80 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQSQ   80 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCCCC
Confidence            489999999999999999999999999999983       6899999999999999999999999999999999986532


Q ss_pred             cccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCc
Q psy10320         77 RSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRN  151 (262)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~  151 (262)
                      ..                              ......+|||+|||..+++++|.++|+.||.|..+.+.     +.++|
T Consensus        81 ~~------------------------------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g  130 (166)
T 3md3_A           81 QS------------------------------SSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRG  130 (166)
T ss_dssp             CC------------------------------CCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEE
T ss_pred             CC------------------------------CCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcce
Confidence            11                              12235699999999999999999999999999999886     34578


Q ss_pred             eEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        152 EGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       152 ~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      +|||+|.+.++|.+|+..|||..++|+.|.|.++.+
T Consensus       131 ~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~~  166 (166)
T 3md3_A          131 YGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK  166 (166)
T ss_dssp             EEEEEESCHHHHHHHHHHHTTCEETTEECEEEESCC
T ss_pred             EEEEEeCCHHHHHHHHHHhCCCccCCcEEEEEecCC
Confidence            999999999999999999999999999999998753

>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=100.00  E-value=1.3e-33  Score=208.82  Aligned_cols=151  Identities=23%  Similarity=0.395  Sum_probs=135.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.++++|+.|++.|+|..+.|+.|.|.++.+
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~   81 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecCC
Confidence            5899999999999999999999999999999983        38999999999999999999999999999999999875


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~  149 (262)
                      ....                                ....+|||+|||..+++++|.++|+.||.|..+.+..     .+
T Consensus        82 ~~~~--------------------------------~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~  129 (167)
T 1fxl_A           82 SSAS--------------------------------IRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVS  129 (167)
T ss_dssp             CCGG--------------------------------GTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCE
T ss_pred             Cccc--------------------------------CCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCc
Confidence            4221                                1245899999999999999999999999999998863     34


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCCce--EEEeec
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNGRR--IRLIED  185 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~--~~v~~~  185 (262)
                      +|+|||+|.+.++|.+|+..|||..+.|+.  |.|.++
T Consensus       130 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v~~A  167 (167)
T 1fxl_A          130 RGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA  167 (167)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             cceEEEEeCCHHHHHHHHHHhcCCccCCCccceEEEeC
Confidence            789999999999999999999999999975  777654

>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=100.00  E-value=9.3e-34  Score=215.53  Aligned_cols=182  Identities=17%  Similarity=0.193  Sum_probs=136.7

Q ss_pred             ccceEEEcCCC-CCCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCc
Q psy10320          2 VGTKVYIGGLP-YGVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         2 ~~~~l~V~nl~-~~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~   77 (262)
                      .+++|||+||| +.+|+++|+++|+.||.|.+|.|.   +|||||+|.++++|+.||+.|||..|.|+.|.|.+++....
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~~~~~   82 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQPAI   82 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTTSTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCSCC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecCCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccCCcc
Confidence            46899999999 799999999999999999999984   69999999999999999999999999999999999975432


Q ss_pred             ccccC-CCCCCC-----CCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCce--EEEeccc--
Q psy10320         78 SQERG-RRGYGS-----YRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEV--CYADAHK--  147 (262)
Q Consensus        78 ~~~~~-~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i--~~~~~~~--  147 (262)
                      ..... ....+.     ....+...+... ..........+..+|||+|||..+++++|+++|++||.|  ..+.+..  
T Consensus        83 ~p~~~~~~~~~~~~~~~~~~~~~~r~~~~-~~~~~~~~~~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~  161 (205)
T 3tyt_A           83 MPGQSYGLEDGSCSYKDFSESRNNRFSTP-EQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGK  161 (205)
T ss_dssp             CCCSCCBCTTSCBSEEECTTCTTCSCSSH-HHHTTSCCCCCCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCC
T ss_pred             CCCcccccccCCccccccCCCccccccCc-ccccccccCCCcceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCC
Confidence            11000 000000     000000000000 000000112336789999999999999999999999998  7777663  


Q ss_pred             -CCCceEEEEecCHHHHHHHHHHhCCcccCCc----eEEEee
Q psy10320        148 -RHRNEGVVEFESSSDMKKALDKLDNAELNGR----RIRLIE  184 (262)
Q Consensus       148 -~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~----~~~v~~  184 (262)
                       ..+|+|||+|.+.++|..||..|||..+.|.    ++.|+.
T Consensus       162 ~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~~~~p~~vk~  203 (205)
T 3tyt_A          162 SERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLKL  203 (205)
T ss_dssp             SSSSEEEEEECSSHHHHHHHHHHHTTCEECCSSSSSCEECEE
T ss_pred             CCCceEEEEEeCCHHHHHHHHHHhCCCCccCCCCCcceEEEe
Confidence             3468999999999999999999999999886    455554

>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=100.00  E-value=1e-33  Score=214.92  Aligned_cols=162  Identities=19%  Similarity=0.355  Sum_probs=133.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.++++|+.||. +++..|.|+.|.|.++..
T Consensus        13 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~-~~~~~~~g~~l~v~~~~~   91 (196)
T 1l3k_A           13 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRAVS   91 (196)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHh-cCCCEECCEEeeeecccC
Confidence            5799999999999999999999999999999883        5799999999999999995 499999999999999875


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~  149 (262)
                      ......                          ........+|||+|||..+++++|.++|+.||.|..+.+.     +.+
T Consensus        92 ~~~~~~--------------------------~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~  145 (196)
T 1l3k_A           92 REDSQR--------------------------PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKK  145 (196)
T ss_dssp             -------------------------------------CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCE
T ss_pred             cccccc--------------------------cccCCCcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCc
Confidence            432210                          0011234699999999999999999999999999999886     335


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCCCC
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGR  192 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~~~  192 (262)
                      +|+|||+|.+.++|.+|+.. +|..++|+.|.|..+.++....
T Consensus       146 ~g~afV~F~~~~~A~~A~~~-~~~~~~G~~i~v~~a~~k~~~~  187 (196)
T 1l3k_A          146 RGFAFVTFDDHDSVDKIVIQ-KYHTVNGHNCEVRKALSKQEMA  187 (196)
T ss_dssp             EEEEEEEESSHHHHHHHHHC-SCCEETTEECEEEECC------
T ss_pred             cceEEEEECCHHHHHHHHHh-CCcEECCEEEEEEecCChhHhc
Confidence            78999999999999999985 8999999999999998775543

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

Probab=100.00  E-value=4.1e-33  Score=214.83  Aligned_cols=166  Identities=22%  Similarity=0.397  Sum_probs=140.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..|.|        .+|||||+|.+.++|+.|++.|++..|.|+.|.|.++..
T Consensus        28 ~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~~  107 (216)
T 2qfj_A           28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSN  107 (216)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecCCC
Confidence            579999999999999999999999999999998        379999999999999999999999999999999988765


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~  149 (262)
                      .........                     ..........+|||+|||..+++++|.++|+.||.|..+.+..     .+
T Consensus       108 ~~~~~~~~~---------------------~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~  166 (216)
T 2qfj_A          108 IGQAQPIID---------------------QLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKH  166 (216)
T ss_dssp             CGGGHHHHH---------------------HHHHHHTTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCE
T ss_pred             ccccchhhh---------------------hhhcccCCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCc
Confidence            432111000                     0000012246999999999999999999999999999998873     34


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      +|+|||+|.+.++|.+|+..|||..++|+.|.|.++.+..
T Consensus       167 ~g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~V~~a~~~~  206 (216)
T 2qfj_A          167 KGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTPP  206 (216)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCBCSSSBCEEEECSSCS
T ss_pred             CceEEEEecCHHHHHHHHHHccCCEeCCcEEEEEEecCCC
Confidence            7899999999999999999999999999999999988764

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=100.00  E-value=8e-33  Score=210.37  Aligned_cols=175  Identities=15%  Similarity=0.306  Sum_probs=142.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcC----C-------ceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccCCceEE
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGY----G-------RIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLLGERVT   68 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~----G-------~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~   68 (262)
                      ++++|||+|||+.+|+++|+++|+.|    |       .|..+.+  .+|||||+|.++++|+.|+ .|||..|.|+.|.
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~~~g~afV~F~~~~~A~~Al-~l~g~~~~g~~i~   81 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLK   81 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEETTTTEEEEEESCSHHHHHHG-GGTTEEETTEEEE
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecCCCCEEEEEeCCHHHHHHHH-HhcCCEEcCceEE
Confidence            46899999999999999999999999    5       6777777  4899999999999999999 9999999999999


Q ss_pred             EEEccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccC
Q psy10320         69 VEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR  148 (262)
Q Consensus        69 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~  148 (262)
                      |.++..............         ..   ..............+|||+|||..+++++|.++|+.||.|..+.+...
T Consensus        82 v~~~~~~~~~~~~~~~~~---------~~---~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~  149 (198)
T 2yh0_A           82 IRRPHDYQPLPGMSENPS---------VY---VPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKD  149 (198)
T ss_dssp             EECCCCCCCCCCSSSCSS---------CC---CTTSSCCCSSCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEEC
T ss_pred             EeCCCCCCCCCCCcCCCc---------CC---CCCCccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeec
Confidence            998876533221100000         00   000011112244679999999999999999999999999999988643


Q ss_pred             -----CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        149 -----HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       149 -----~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                           ++|+|||+|.+.++|..|+..|+|..++|+.|.|.++.++.
T Consensus       150 ~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~  195 (198)
T 2yh0_A          150 SATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVGA  195 (198)
T ss_dssp             TTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEEEESCCCC
T ss_pred             CCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCC
Confidence                 37899999999999999999999999999999999998764

>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=100.00  E-value=1.8e-32  Score=219.56  Aligned_cols=184  Identities=18%  Similarity=0.258  Sum_probs=142.3

Q ss_pred             cceEEEcCCCCCCCHHHHH----HHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLE----KFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~----~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+    ++|+.||.|..|.+.     +|||||+|.+.++|+.|++.|||..|.|+.|.|.++.
T Consensus         9 ~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   88 (282)
T 3pgw_A            9 NHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK   88 (282)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcCCCCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEEec
Confidence            5799999999999999976    899999999999984     5999999999999999999999999999999999997


Q ss_pred             CCCcccccCCCC-------------------------C--------C---CC---------------------C-CCCCC
Q psy10320         74 GIDRSQERGRRG-------------------------Y--------G---SY---------------------R-APPPR   95 (262)
Q Consensus        74 ~~~~~~~~~~~~-------------------------~--------~---~~---------------------~-~~~~~   95 (262)
                      ............                         .        .   +.                     . .+++.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~p~  168 (282)
T 3pgw_A           89 TDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYMPPPG  168 (282)
T ss_pred             cCcchhhhhcCCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCcccccccccccCCCCCCCCCCCC
Confidence            644210000000                         0        0   00                     0 00000


Q ss_pred             CCCCCCCC----------------C-----CCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEE
Q psy10320         96 RGWGHDRD----------------D-----RYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGV  154 (262)
Q Consensus        96 ~~~~~~~~----------------~-----~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~  154 (262)
                      ........                .     .......+..+|||+|||..+++++|+++|+.||.|..+.+....+|+||
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~~~g~af  248 (282)
T 3pgw_A          169 MIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHDIAF  248 (282)
T ss_pred             CCCCCCCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecCCCcEEE
Confidence            00000000                0     00012234578999999999999999999999999999999877779999


Q ss_pred             EEecCHHHHHHHHHHhCCcccC-CceEEEeecC
Q psy10320        155 VEFESSSDMKKALDKLDNAELN-GRRIRLIEDK  186 (262)
Q Consensus       155 v~f~~~~~a~~a~~~l~g~~~~-g~~~~v~~~~  186 (262)
                      |+|.+.++|..|+..|||..+. |+.|.|.+++
T Consensus       249 V~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~ak  281 (282)
T 3pgw_A          249 VEFDNEVQAGAARDALQGFKITQNNAMKISFAK  281 (282)
T ss_pred             EEeCCHHHHHHHHHHcCCcEeCCCCEEEEEEec
Confidence            9999999999999999999999 9999999875

>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=100.00  E-value=5.6e-33  Score=206.55  Aligned_cols=150  Identities=17%  Similarity=0.408  Sum_probs=134.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcC----C-------ceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGY----G-------RIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTV   69 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~----G-------~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v   69 (262)
                      .++|||+|||+.+|+++|+++|+.|    |       .|..+.+  .+|||||+|.++++|+.|+ .|+|..|.|+.|.|
T Consensus         4 ~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~~~g~afV~f~~~~~A~~A~-~~~~~~~~g~~i~v   82 (172)
T 2g4b_A            4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKI   82 (172)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEETTTTEEEEEESSHHHHHHHG-GGTTCEETTEECEE
T ss_pred             ccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecCCCCEEEEEeCCHHHHHHHH-HhCCcEecCceeee
Confidence            5899999999999999999999999    6       7788877  4899999999999999999 99999999999999


Q ss_pred             EEccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc--
Q psy10320         70 EIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK--  147 (262)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~--  147 (262)
                      .++.....                                .....+|||+|||..+++++|.++|++||.|..+.+..  
T Consensus        83 ~~~~~~~~--------------------------------~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~  130 (172)
T 2g4b_A           83 RRPHDYQP--------------------------------LPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDS  130 (172)
T ss_dssp             ECCSSCCC--------------------------------CTTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECT
T ss_pred             cCCcccCC--------------------------------CCCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecC
Confidence            97654211                                11256899999999999999999999999999998863  


Q ss_pred             ---CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        148 ---RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       148 ---~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                         .++|+|||+|.+.++|.+|+..|||..++|+.|.|.++
T Consensus       131 ~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~A  171 (172)
T 2g4b_A          131 ATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA  171 (172)
T ss_dssp             TTCSEEEEEEEEESSTTHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCCcceEEEEEeCCHHHHHHHHHHcCCCEECCeEEEEEeC
Confidence               34789999999999999999999999999999999876

>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=100.00  E-value=1.2e-33  Score=210.77  Aligned_cols=155  Identities=25%  Similarity=0.443  Sum_probs=136.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|..||.|..+.+       .+|||||+|.++++|+.|+ .|+|..|.|+.|.|.++...
T Consensus        13 ~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~v~~~~~~   91 (175)
T 1fje_B           13 PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKGR   91 (175)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHH-HGGGEEETTEEEEEECCCCS
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHH-hcCCCEeCCeEEEEecCCCc
Confidence            579999999999999999999999986544222       3799999999999999999 69999999999999998754


Q ss_pred             CcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEE
Q psy10320         76 DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVV  155 (262)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v  155 (262)
                      ...                              ......+|||+|||..+++++|+++|+.||.|..+...+.++|+|||
T Consensus        92 ~~~------------------------------~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~~~~~~~~g~afV  141 (175)
T 1fje_B           92 DSK------------------------------KVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYI  141 (175)
T ss_dssp             SCS------------------------------TTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEECSSSSCCSEEEE
T ss_pred             ccc------------------------------ccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEecCCCCCceEEEE
Confidence            221                              11235699999999999999999999999999888444678899999


Q ss_pred             EecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        156 EFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       156 ~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +|.+.++|.+|+..|+|..++|+.|.|.++.++
T Consensus       142 ~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~~k  174 (175)
T 1fje_B          142 EFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEK  174 (175)
T ss_dssp             ECSSHHHHHHHHHHHTEEEETTEEEEEEECSSC
T ss_pred             EECCHHHHHHHHHHhCCCEECCeEEEEEecCCC
Confidence            999999999999999999999999999998775

>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=100.00  E-value=1.9e-32  Score=204.21  Aligned_cols=152  Identities=18%  Similarity=0.315  Sum_probs=132.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee----------CcEEEEEeCChhhHHHHHHHhcCcccC---CceEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK----------NGFGFVEFEDYRDADDAVYELNGKSLL---GERVTV   69 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~----------~g~afV~f~~~~~a~~a~~~l~~~~~~---g~~l~v   69 (262)
                      .++|||+|||+.+|+++|+++|+.||+|..|.+.          +|||||+|.++++|+.|++.|++..+.   +..+.+
T Consensus         3 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~~   82 (175)
T 3nmr_A            3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQM   82 (175)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEE
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceEE
Confidence            5899999999999999999999999999999873          579999999999999999999998775   577788


Q ss_pred             EEccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc--
Q psy10320         70 EIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK--  147 (262)
Q Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~--  147 (262)
                      .++......                               .....+|||+|||..+++++|+++|+.||.|..+.+..  
T Consensus        83 ~~~~~~~~~-------------------------------~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~  131 (175)
T 3nmr_A           83 KPADSEKNN-------------------------------AVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGP  131 (175)
T ss_dssp             EECGGGCCS-------------------------------CGGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECT
T ss_pred             ccccccccc-------------------------------cCCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECC
Confidence            776643221                               11256899999999999999999999999999998873  


Q ss_pred             --CCCceEEEEecCHHHHHHHHHHhCCcccC---CceEEEeec
Q psy10320        148 --RHRNEGVVEFESSSDMKKALDKLDNAELN---GRRIRLIED  185 (262)
Q Consensus       148 --~~~~~~~v~f~~~~~a~~a~~~l~g~~~~---g~~~~v~~~  185 (262)
                        .++|+|||+|.+.++|.+|+..|||..+.   ++.|.|.++
T Consensus       132 ~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~~a  174 (175)
T 3nmr_A          132 DGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFA  174 (175)
T ss_dssp             TSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEEEEC
T ss_pred             CCCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEEEec
Confidence              35789999999999999999999998776   389999876

>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=100.00  E-value=3.4e-33  Score=206.76  Aligned_cols=151  Identities=24%  Similarity=0.467  Sum_probs=134.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.++++|+.|+..  +..+.|+.|.|.++..
T Consensus         3 ~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~--~~~~~g~~i~v~~~~~   80 (167)
T 2cjk_A            3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT--QHILDGKVIDPKRAIP   80 (167)
T ss_dssp             GGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS--CCEETTEECCCEECCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhc--ccccCCeEcccccccc
Confidence            6899999999999999999999999999999983        58999999999999999974  5789999999988764


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~  149 (262)
                      .....                                ...+|||+|||..+++++|.++|+.||.|..+.+.     +.+
T Consensus        81 ~~~~~--------------------------------~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~  128 (167)
T 2cjk_A           81 RDEQD--------------------------------KTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQS  128 (167)
T ss_dssp             HHHHH--------------------------------HCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTT
T ss_pred             hhhcc--------------------------------CCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCcc
Confidence            32211                                14589999999999999999999999999999876     345


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +|+|||+|.+.++|.+|++ ++|..++|+.|.|.++.++
T Consensus       129 ~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V~~a~pk  166 (167)
T 2cjk_A          129 RGFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEIKRAEPR  166 (167)
T ss_dssp             SEEEEEEESSHHHHHHHHH-CSEECSSSSCEEEEECCCC
T ss_pred             ceEEEEEECCHHHHHHHHh-CCCEEeCCeEEEEeecCCC
Confidence            7899999999999999998 8999999999999999875

>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=99.98  E-value=1.1e-31  Score=212.33  Aligned_cols=149  Identities=29%  Similarity=0.425  Sum_probs=135.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQE   80 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~   80 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.  +|||||+|.+.++|..|+..|+|..|.|+.|.|.++..      
T Consensus        22 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~~------   95 (261)
T 3sde_A           22 RCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFATH------   95 (261)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC------
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeCCCcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeeccc------
Confidence            4799999999999999999999999999999995  89999999999999999999999999999999998863      


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEE
Q psy10320         81 RGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVE  156 (262)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~  156 (262)
                                                      ..+|||+|||..+++++|.++|..||.|..+.+.    +.++|+|||+
T Consensus        96 --------------------------------~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~  143 (261)
T 3sde_A           96 --------------------------------GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVE  143 (261)
T ss_dssp             --------------------------------SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTSCEEEEEEEE
T ss_pred             --------------------------------CCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCCCCcCcEEEEE
Confidence                                            3489999999999999999999999999999876    3467899999


Q ss_pred             ecCHHHHHHHHHHhCC-cccC---CceEEEeecCCCC
Q psy10320        157 FESSSDMKKALDKLDN-AELN---GRRIRLIEDKPRG  189 (262)
Q Consensus       157 f~~~~~a~~a~~~l~g-~~~~---g~~~~v~~~~~~~  189 (262)
                      |.+.++|..|+..|++ ..+.   ++.|.|..+.+..
T Consensus       144 f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~~~~~  180 (261)
T 3sde_A          144 FAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQFD  180 (261)
T ss_dssp             ESSHHHHHHHHHHHHHSCEESSSSCCBCEEEECCCEE
T ss_pred             eCCHHHHHHHHHHhcCCeEEecCCCceEEEeeccccC
Confidence            9999999999999954 4444   8999998887653

>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=99.97  E-value=7.8e-31  Score=210.27  Aligned_cols=147  Identities=19%  Similarity=0.312  Sum_probs=135.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQE   80 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~   80 (262)
                      .++|||+|||+.+|+++|.++|+.|| |..|.+  .+|||||+|.++++|..|+..|+|..|.|+.|.|.++..      
T Consensus        22 ~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~~~~------   94 (284)
T 3smz_A           22 RRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQPT------   94 (284)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC------
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcC-CEEEEEecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEEecCC------
Confidence            58999999999999999999999999 999988  479999999999999999999999999999999997532      


Q ss_pred             cCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEE
Q psy10320         81 RGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVV  155 (262)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v  155 (262)
                                                      ..+|||+|||..+++++|.++|..||.|..+.+.     +.++|+|||
T Consensus        95 --------------------------------~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV  142 (284)
T 3smz_A           95 --------------------------------DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFA  142 (284)
T ss_dssp             --------------------------------SCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEE
T ss_pred             --------------------------------CCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEE
Confidence                                            3589999999999999999999999999998776     335789999


Q ss_pred             EecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        156 EFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       156 ~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +|.+.++|..|+..|+|..++|+.|.|..+.+.
T Consensus       143 ~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~~~  175 (284)
T 3smz_A          143 EYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAG  175 (284)
T ss_dssp             EESSHHHHHHHHHHHTTCEETTEECEEEECCGG
T ss_pred             EECCHHHHHHHHHHhCCCEeCCcEEEEEECCCC
Confidence            999999999999999999999999999988664

>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=99.97  E-value=7.2e-31  Score=211.31  Aligned_cols=160  Identities=16%  Similarity=0.317  Sum_probs=139.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCC-ceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYG-RIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G-~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|.++|..|| .|..|.+       .+|||||+|.+.++|..|+..|+|..|.|+.|.|.++.+
T Consensus       117 ~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  196 (292)
T 2ghp_A          117 ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP  196 (292)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCC
Confidence            57999999999999999999999999 9999998       379999999999999999999999999999999999875


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCC-CCHHHHHHHhhcCCceEEEecc------c
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSR-VSWQDLKDFMRQVGEVCYADAH------K  147 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~-~~~~~l~~~f~~~g~i~~~~~~------~  147 (262)
                      .......                         ........+|||+|||.. +++++|.++|+.||.|..+.+.      +
T Consensus       197 ~~~~~~~-------------------------~~~~~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg  251 (292)
T 2ghp_A          197 LEKSKRT-------------------------DSATLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHS  251 (292)
T ss_dssp             C----------------------------------CCTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---
T ss_pred             Ccccccc-------------------------cccCCCCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCcCC
Confidence            4332210                         012233569999999999 9999999999999999999886      3


Q ss_pred             CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        148 RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       148 ~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .++|+|||+|.+.++|..|+ .|||..++|+.|.|.++.++
T Consensus       252 ~~~g~afV~F~~~~~A~~A~-~l~g~~~~g~~i~V~~a~~k  291 (292)
T 2ghp_A          252 FNNCCAFMVFENKDSAERAL-QMNRSLLGNREISVSLADKK  291 (292)
T ss_dssp             CCCEEEEEEESSHHHHHHHG-GGTTEEETTEEEEEEECCCC
T ss_pred             CCceEEEEEeCCHHHHHHHH-HhcCCEECCcEEEEEEecCC
Confidence            45789999999999999999 99999999999999998875

>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=99.97  E-value=7.8e-31  Score=210.27  Aligned_cols=159  Identities=19%  Similarity=0.299  Sum_probs=140.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|.++|+.||.|..|.+.        +|||||+|.+.++|..|+..|+|..|.|+.|.|.++..
T Consensus        95 ~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~~  174 (284)
T 3smz_A           95 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDA  174 (284)
T ss_dssp             SCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCG
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCC
Confidence            4799999999999999999999999999999873        68999999999999999999999999999999999875


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCC-CHHHHHHHhhcCCceEEEeccc----CC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRV-SWQDLKDFMRQVGEVCYADAHK----RH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~-~~~~l~~~f~~~g~i~~~~~~~----~~  149 (262)
                      .....                             ......+|||+|||..+ ++++|.++|+.||.|..+.+..    .+
T Consensus       175 ~~~~~-----------------------------~~~~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~~g~~  225 (284)
T 3smz_A          175 GQLTP-----------------------------ALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQL  225 (284)
T ss_dssp             GGCCT-----------------------------TTTSCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECSSCCE
T ss_pred             CCCCc-----------------------------ccCCccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECCCCCc
Confidence            42211                             11235689999999995 9999999999999998888763    45


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      +|+|||+|.+.++|..|+..|+|..++|+.|.|.++.++..
T Consensus       226 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~  266 (284)
T 3smz_A          226 KGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAPGPP  266 (284)
T ss_dssp             EEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCSSSC
T ss_pred             ccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEecCCCc
Confidence            78999999999999999999999999999999999977643

>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=99.97  E-value=2.1e-30  Score=208.60  Aligned_cols=147  Identities=18%  Similarity=0.276  Sum_probs=134.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|.++|+.||+|..|.|.      +|||||+|.++++|+.|+ .|+|..|.|+.|.|.++.   
T Consensus        41 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~A~~A~-~~~~~~~~g~~i~v~~~~---  116 (292)
T 2ghp_A           41 LTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAI-TKTHKVVGQNEIIVSHLT---  116 (292)
T ss_dssp             -CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEECC---
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEEECCHHHHHHHH-HhCCcEeCCcEEEEEECC---
Confidence            5899999999999999999999999999999983      699999999999999999 699999999999999863   


Q ss_pred             cccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCC-ceEEEecc----cCCCc
Q psy10320         77 RSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAH----KRHRN  151 (262)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g-~i~~~~~~----~~~~~  151 (262)
                                                          ..+|||+|||..+++++|.++|..|| .|..+.+.    +..+|
T Consensus       117 ------------------------------------~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g  160 (292)
T 2ghp_A          117 ------------------------------------ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRR  160 (292)
T ss_dssp             ------------------------------------SCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CC
T ss_pred             ------------------------------------CCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcce
Confidence                                                45999999999999999999999999 99999886    34689


Q ss_pred             eEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        152 EGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       152 ~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      +|||+|.+.++|..|+..|+|..+.|+.|.|..+.+..
T Consensus       161 ~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~  198 (292)
T 2ghp_A          161 FAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLE  198 (292)
T ss_dssp             EEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCC-
T ss_pred             EEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCc
Confidence            99999999999999999999999999999999987654

>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=99.92  E-value=2.5e-25  Score=153.64  Aligned_cols=104  Identities=20%  Similarity=0.333  Sum_probs=69.9

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.|.      +|||||+|.+.++|+.||+.|+|..|+|+.|.|.++...
T Consensus         4 ~~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~~   83 (115)
T 4f25_A            4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   83 (115)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSCC
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCc
Confidence            46899999999999999999999999999999983      789999999999999999999999999999999998754


Q ss_pred             CcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHH
Q psy10320         76 DRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQD  129 (262)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~  129 (262)
                      .......                        .........|||+|||+.+|++.
T Consensus        84 ~~~~~~~------------------------~~~~~~~~~lyv~Nl~~~~T~~a  113 (115)
T 4f25_A           84 KEREAEL------------------------GARAKEFTNVYIKNFGPGSTRAA  113 (115)
T ss_dssp             CC----------------------------------------------------
T ss_pred             ccccccc------------------------ccccCCCCceEeCCCCCCccccc
Confidence            3221110                        00111234799999999998753

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=99.89  E-value=5.8e-23  Score=172.46  Aligned_cols=77  Identities=19%  Similarity=0.307  Sum_probs=71.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      +.++|||+|||..+++++|.++|.+||.|..|.|+     +..+|||||+|.+.++|.+||..|||..|.|+.|.|.++.
T Consensus       101 ~~~~lfV~nL~~~~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          101 AFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVER  180 (437)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            35699999999999999999999999999999886     3468999999999999999999999999999999999887


Q ss_pred             CC
Q psy10320        187 PR  188 (262)
Q Consensus       187 ~~  188 (262)
                      +.
T Consensus       181 ~~  182 (437)
T 3pgw_S          181 GR  182 (437)
T ss_pred             CC
Confidence            54

>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=99.89  E-value=1.4e-22  Score=146.63  Aligned_cols=136  Identities=20%  Similarity=0.173  Sum_probs=111.4

Q ss_pred             CcEEEEEeCChhhHHHHHHHh-cCcccCCceEEEEEccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCce
Q psy10320         37 NGFGFVEFEDYRDADDAVYEL-NGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHR  115 (262)
Q Consensus        37 ~g~afV~f~~~~~a~~a~~~l-~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (262)
                      +|+++|+|.+.++|++|++.| ||..++| .+.+.++............                ..............+
T Consensus        13 ~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~   75 (150)
T 2i2y_A           13 KGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTFTVTEGSHH----------------HHHHMHRDSCPLDCK   75 (150)
T ss_dssp             CEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEEEEECSSSS----------------CCCCSCSSSSTTSCE
T ss_pred             cccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCcccccccccc----------------ccccccccCCCCCCE
Confidence            799999999999999999999 9999999 9999877643222111000                000011122334679


Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      |||+|||..+++++|+++|++||.|..+.+...++|+|||+|.+.++|..|+..|||..++|+.|.|.++.++.
T Consensus        76 l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~  149 (150)
T 2i2y_A           76 VYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNGEK  149 (150)
T ss_dssp             EEEESCCSCCSCHHHHHHHHHHSCEEEEEECSSSCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECCCCC
T ss_pred             EEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcCCCC
Confidence            99999999999999999999999999999988789999999999999999999999999999999999987753

>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=99.89  E-value=8.7e-23  Score=136.70  Aligned_cols=72  Identities=28%  Similarity=0.523  Sum_probs=68.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +|+|||+|||+++|+++|+++|+.||+|..|.|.        +|||||+|.++++|+.|++.|||..|+|+.|.|.++++
T Consensus        19 gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~AkP   98 (99)
T 4fxv_A           19 GTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYARP   98 (99)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCB
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            6899999999999999999999999999999983        68999999999999999999999999999999999864

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=99.89  E-value=9e-22  Score=165.24  Aligned_cols=75  Identities=27%  Similarity=0.532  Sum_probs=70.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.||+++|.++|..||.|..|.|.        +|||||+|.++++|+.||..|||..|.|+.|.|.++..
T Consensus       102 ~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a~~  181 (437)
T 3pgw_S          102 FKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERG  181 (437)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            4799999999999999999999999999999883        78999999999999999999999999999999999986


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus       182 ~~~  184 (437)
T 3pgw_S          182 RTV  184 (437)
T ss_pred             CCC
Confidence            544

>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=99.88  E-value=1.1e-21  Score=143.33  Aligned_cols=136  Identities=21%  Similarity=0.197  Sum_probs=101.2

Q ss_pred             eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCce
Q psy10320         36 KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHR  115 (262)
Q Consensus        36 ~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (262)
                      .+|||||+|.++++|++|+..+++....+..+.+............                   ..............+
T Consensus        12 ~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~   72 (158)
T 2kn4_A           12 LKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEG-------------------SHHHHHHMDVEGMTS   72 (158)
T ss_dssp             CEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEEEETTTTEEEEECC-------------------CCCSSCCCCCCBCCE
T ss_pred             ccchhHHHHHHHHhHHHHHHhhcccCCCCCcccccCcccccccccc-------------------ccccccccCCCCCCE
Confidence            3799999999999999999888875333333333211111000000                   000001112233569


Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      |||+|||..+++++|+++|+.||.|..+.+.     +..+|+|||+|.+.++|..|+..|||..+.|+.|.|.++.+...
T Consensus        73 l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~  152 (158)
T 2kn4_A           73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRP  152 (158)
T ss_dssp             EEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEECCSSC
T ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCCCCC
Confidence            9999999999999999999999999999886     44689999999999999999999999999999999999987644

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

Probab=99.87  E-value=4.1e-22  Score=126.91  Aligned_cols=72  Identities=14%  Similarity=0.191  Sum_probs=68.8

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      +++.|||+||++.+|+++|+++|.+||+|..+.+  ++|||||+|.++++|+.|+..||+..+.|+.|.|.++.
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~   79 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYLNQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPS   79 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCC
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcCCCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECC
Confidence            4678999999999999999999999999999998  59999999999999999999999999999999999884

>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=99.87  E-value=2e-21  Score=131.40  Aligned_cols=77  Identities=29%  Similarity=0.465  Sum_probs=72.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCccc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQ   79 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~   79 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.++||||+|.+.++|+.|++.||+..|.|+.|.|.++.......
T Consensus        11 ~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~~   87 (103)
T 2dgu_A           11 VKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKPPDQKR   87 (103)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEECSSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCCCCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcCCCcccc
Confidence            47999999999999999999999999999999999999999999999999999999999999999999998765544

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

Probab=99.86  E-value=7.7e-22  Score=133.08  Aligned_cols=73  Identities=48%  Similarity=0.796  Sum_probs=69.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      |+|||+|||+.+|+++|+++|+.||+|..|.+.   +|||||+|.+.++|+.|++.|+|..|.|+.|.|.++....
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~   76 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTGMP   76 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESSSSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSSCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccCCC
Confidence            699999999999999999999999999999994   7899999999999999999999999999999999998754

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

Probab=99.86  E-value=1.4e-21  Score=130.55  Aligned_cols=77  Identities=16%  Similarity=0.298  Sum_probs=70.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcC--cccCCceEEEEEccCCCc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNG--KSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~--~~~~g~~l~v~~~~~~~~   77 (262)
                      ..++|||+|||+.+|+++|+++|++||.|.+|.|.  +|||||+|++.++|+.|++.|++  ..|.|+.|.|.++.....
T Consensus        15 ~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A~~~~~   94 (105)
T 1sjq_A           15 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKEL   94 (105)
T ss_dssp             CCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCCSSSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcCCCCC
Confidence            36899999999999999999999999999999996  79999999999999999998864  789999999999986544


Q ss_pred             c
Q psy10320         78 S   78 (262)
Q Consensus        78 ~   78 (262)
                      .
T Consensus        95 ~   95 (105)
T 1sjq_A           95 K   95 (105)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.85  E-value=5.4e-21  Score=126.05  Aligned_cols=76  Identities=29%  Similarity=0.542  Sum_probs=72.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~   77 (262)
                      ..++|||+|||+++|+++|+++|+.||.|..|.+.++||||+|.+.++|+.|+..||+..|.|+.|.|.++.....
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~   82 (90)
T 2dnq_A            7 GMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIKNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKNKSK   82 (90)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEETTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSSCCCC
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECCCCCC
Confidence            3589999999999999999999999999999999999999999999999999999999999999999999986543

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

Probab=99.85  E-value=4.7e-21  Score=126.67  Aligned_cols=74  Identities=30%  Similarity=0.346  Sum_probs=68.9

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcc--cCCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKS--LLGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~--~~g~~l~v~~~~~~   75 (262)
                      .+.+|||+|||+.+|+++|.++|++||.|.+|.+.  +|+|||+|++.++|..|+..|++..  |.|+.|.|++++.+
T Consensus        20 ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~S~~k   97 (100)
T 3r27_A           20 ASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYSTSQ   97 (100)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEECSCS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEecccc
Confidence            35799999999999999999999999999999985  8999999999999999999999875  78999999999865

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

Probab=99.85  E-value=7.3e-21  Score=125.96  Aligned_cols=76  Identities=22%  Similarity=0.415  Sum_probs=72.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~   77 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.+.++||||+|.+.++|+.|+..||+..|.|+.|.|.++.....
T Consensus         9 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~   84 (92)
T 2dgt_A            9 ASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLR   84 (92)
T ss_dssp             SSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECSSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESSCCCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEECCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccCCCC
Confidence            3689999999999999999999999999999999999999999999999999999999999999999999986543

>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=99.85  E-value=6.5e-21  Score=127.25  Aligned_cols=74  Identities=27%  Similarity=0.605  Sum_probs=70.7

Q ss_pred             ccceEEEcCCCC-CCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~-~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .+++|||+|||+ .+|+++|+++|+.||.|..|.+++|||||+|.+.++|+.|+..|||..|+|+.|.|+++...
T Consensus        21 ~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   95 (97)
T 2xnq_A           21 MKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSSSN   95 (97)
T ss_dssp             TTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEECSSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEECCCC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEeCCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCCC
Confidence            368999999998 99999999999999999999999999999999999999999999999999999999998753

>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=99.85  E-value=1e-20  Score=124.20  Aligned_cols=75  Identities=28%  Similarity=0.507  Sum_probs=70.6

Q ss_pred             CccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe---------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEE
Q psy10320          1 MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEI   71 (262)
Q Consensus         1 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i---------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~   71 (262)
                      |..++|||+|||+++|+++|+++|+.||.|..|.+         .+|||||+|.+.++|+.|++.|||..|+|+.|.|.+
T Consensus         2 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   81 (88)
T 4a8x_A            2 MKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATA   81 (88)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEE
Confidence            45789999999999999999999999999999998         578999999999999999999999999999999999


Q ss_pred             ccCC
Q psy10320         72 AKGI   75 (262)
Q Consensus        72 ~~~~   75 (262)
                      +.+.
T Consensus        82 a~~~   85 (88)
T 4a8x_A           82 VLAP   85 (88)
T ss_dssp             ECCC
T ss_pred             CCCC
Confidence            8754

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

Probab=99.85  E-value=2.7e-21  Score=127.96  Aligned_cols=73  Identities=18%  Similarity=0.307  Sum_probs=66.4

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCc--eeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCc----ccCCceE
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGR--IRDVIL--------KNGFGFVEFEDYRDADDAVYELNGK----SLLGERV   67 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~--v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~----~~~g~~l   67 (262)
                      .+.||||+|||+.+|+++|+++|++||.  |.+|.+        ++|||||+|.++++|+.|++.|||.    .|+|+.|
T Consensus         8 ~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i   87 (95)
T 2lkz_A            8 HMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTI   87 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEE
T ss_pred             ccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEE
Confidence            3689999999999999999999999995  667877        3789999999999999999999997    4899999


Q ss_pred             EEEEccC
Q psy10320         68 TVEIAKG   74 (262)
Q Consensus        68 ~v~~~~~   74 (262)
                      .|.+++.
T Consensus        88 ~V~~Aks   94 (95)
T 2lkz_A           88 GVDFAKS   94 (95)
T ss_dssp             EEEECCC
T ss_pred             EEEEccC
Confidence            9999874

>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.84  E-value=4.2e-21  Score=128.25  Aligned_cols=75  Identities=20%  Similarity=0.237  Sum_probs=68.9

Q ss_pred             ccceEEEcCCCC-CCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCc--ccCCceEEEEEccCCC
Q psy10320          2 VGTKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGK--SLLGERVTVEIAKGID   76 (262)
Q Consensus         2 ~~~~l~V~nl~~-~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~--~~~g~~l~v~~~~~~~   76 (262)
                      .+++|||+|||+ .+|+++|+++|++||.|.+|.|.  ++||||+|++.++|+.|++.|++.  .|.|+.|.|.++....
T Consensus        14 p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~~   93 (102)
T 1x4d_A           14 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQKYK   93 (102)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECCCT
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcCCCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEECCCCC
Confidence            357999999999 99999999999999999999995  589999999999999999999864  5999999999998643

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B

Probab=99.84  E-value=2.6e-21  Score=133.62  Aligned_cols=98  Identities=24%  Similarity=0.391  Sum_probs=87.0

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .+++|||+|||+.+|+++|+++|+.||.|..|.|.     +|||||+|.+.++|..|+..|||..|.|+.|.|.++....
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~   86 (115)
T 3lqv_A            7 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYNANR   86 (115)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECCHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecCCh
Confidence            46899999999999999999999999999999983     6899999999999999999999999999999999987532


Q ss_pred             cccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCc
Q psy10320         77 RSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGE  139 (262)
Q Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~  139 (262)
                      ..                                        .+++...++++|.++|++||.
T Consensus        87 ~~----------------------------------------~~~~~~~~~~~l~~~~~~~g~  109 (115)
T 3lqv_A           87 AF----------------------------------------QKMDTKKKEEQLKLLKEKYGI  109 (115)
T ss_dssp             HT----------------------------------------TTSCHHHHHHHHHHHHHHHCC
T ss_pred             hh----------------------------------------hhhhHhHhHHHHHHHHHHhCC
Confidence            21                                        355677888999999999984

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

Probab=99.84  E-value=9e-21  Score=124.98  Aligned_cols=74  Identities=26%  Similarity=0.480  Sum_probs=71.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.+.++||||+|.+.++|+.|+..|||..|.|+.|.|.++...
T Consensus         8 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~   81 (90)
T 2dnp_A            8 NTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTKG   81 (90)
T ss_dssp             CSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECSSCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEECCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECCCC
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999865

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

Probab=99.84  E-value=7.2e-21  Score=126.95  Aligned_cols=76  Identities=28%  Similarity=0.578  Sum_probs=71.8

Q ss_pred             ccceEEEcCCCC-CCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCc
Q psy10320          2 VGTKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         2 ~~~~l~V~nl~~-~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~   77 (262)
                      .+++|||+|||+ .+|+++|+++|+.||.|..|.|++|||||+|.+.++|+.|+..|||..+.|+.|.|.++.....
T Consensus         9 ~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~~   85 (96)
T 2kvi_A            9 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSSSNAR   85 (96)
T ss_dssp             CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEETTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEEECCCC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEeCCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEcCcCCC
Confidence            368999999998 9999999999999999999999999999999999999999999999999999999999986543

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.84  E-value=1.3e-20  Score=128.99  Aligned_cols=77  Identities=16%  Similarity=0.305  Sum_probs=70.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcC--cccCCceEEEEEccCCCcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNG--KSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~--~~~~g~~l~v~~~~~~~~~   78 (262)
                      +++|||+|||+.+|+++|+++|+.||.|.+|.|.  +|||||+|.+.++|+.|++.|++  ..|.|+.|.|.++......
T Consensus        31 s~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~k~~~  110 (119)
T 2ad9_A           31 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKELK  110 (119)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGGGTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEECSSSSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCCCCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEccCCCCC
Confidence            5799999999999999999999999999999986  79999999999999999998874  6899999999999866544


Q ss_pred             c
Q psy10320         79 Q   79 (262)
Q Consensus        79 ~   79 (262)
                      .
T Consensus       111 ~  111 (119)
T 2ad9_A          111 T  111 (119)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.84  E-value=2.2e-21  Score=127.89  Aligned_cols=75  Identities=27%  Similarity=0.438  Sum_probs=67.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCC-ceeEEEee--------CcEEEEEeCChhhHHHHHHHhc-CcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYG-RIRDVILK--------NGFGFVEFEDYRDADDAVYELN-GKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G-~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~-~~~~~g~~l~v~~~   72 (262)
                      +++|||+|||+.+|+++|+++|+.|| +|.+|.|.        +|||||+|.++++|+.||+.|+ +..|+|+.|.|.++
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a   80 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYS   80 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEc
Confidence            47999999999999999999999999 89999872        7999999999999999998875 56899999999999


Q ss_pred             cCCCc
Q psy10320         73 KGIDR   77 (262)
Q Consensus        73 ~~~~~   77 (262)
                      .++..
T Consensus        81 ~~~~~   85 (91)
T 2lxi_A           81 DPKPK   85 (91)
T ss_dssp             CSCCC
T ss_pred             CCCCC
Confidence            86544

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.84  E-value=1.9e-20  Score=125.25  Aligned_cols=77  Identities=14%  Similarity=0.220  Sum_probs=69.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhc--CcccCCceEEEEEccCCCcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELN--GKSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~--~~~~~g~~l~v~~~~~~~~~   78 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..|.|.  +|||||+|.+.++|+.|++.|+  +..|.|+.|.|.++......
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~~~~   94 (101)
T 2cq1_A           15 SRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHKELK   94 (101)
T ss_dssp             CSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCSSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEcCcccCc
Confidence            5799999999999999999999999999999986  6999999999999999998775  67899999999999876544


Q ss_pred             c
Q psy10320         79 Q   79 (262)
Q Consensus        79 ~   79 (262)
                      .
T Consensus        95 ~   95 (101)
T 2cq1_A           95 T   95 (101)
T ss_dssp             C
T ss_pred             C
Confidence            3

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.84  E-value=2.4e-20  Score=125.48  Aligned_cols=76  Identities=22%  Similarity=0.277  Sum_probs=69.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCc--ccCCceEEEEEccCCCcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGK--SLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~--~~~g~~l~v~~~~~~~~~   78 (262)
                      .++|||+|||+.+|+++|+++|++||.|..|.|.  +|||||+|.+.++|+.|++.|++.  .|.|+.|.|.++......
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~~~~~~   94 (104)
T 1wex_A           15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSKRIT   94 (104)
T ss_dssp             CSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSSSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEccCcccc
Confidence            5799999999999999999999999999999985  799999999999999999988764  599999999999865443

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

Probab=99.84  E-value=1.7e-20  Score=128.42  Aligned_cols=74  Identities=30%  Similarity=0.605  Sum_probs=70.8

Q ss_pred             cceEEEcCCCCC-CCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYG-VRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~-~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+. +|+++|+++|+.||.|..|.|.+|||||+|.+.++|+.|+..|++..|.|+.|.|.++....
T Consensus        27 ~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~  101 (110)
T 1wf1_A           27 NSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGEPK  101 (110)
T ss_dssp             SSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEEETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESCCCC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEeCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCCCC
Confidence            479999999999 99999999999999999999999999999999999999999999999999999999997543

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

Probab=99.84  E-value=3.1e-20  Score=124.64  Aligned_cols=74  Identities=31%  Similarity=0.448  Sum_probs=70.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcC--CceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGY--GRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~--G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.|  |.|..|.+.+|||||+|.+.++|+.|+..|||..|.|+.|.|.++....
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~   90 (99)
T 2cpd_A           15 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVD   90 (99)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCCC
T ss_pred             cCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEeCCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECCCCC
Confidence            5799999999999999999999999  9999999999999999999999999999999999999999999998654

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.84  E-value=2e-20  Score=121.40  Aligned_cols=73  Identities=23%  Similarity=0.448  Sum_probs=69.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|+.|+..|||..|+|+.|.|.++.+
T Consensus         1 t~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   80 (83)
T 3md1_A            1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK   80 (83)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecCc
Confidence            4799999999999999999999999999999884        68999999999999999999999999999999999986


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        81 ~   81 (83)
T 3md1_A           81 L   81 (83)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.84  E-value=1.7e-20  Score=127.89  Aligned_cols=75  Identities=24%  Similarity=0.319  Sum_probs=69.9

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      ..++|||+|||+.+|+++|+++|++||.|.+|.|.        +|||||+|.+.++|+.|++.|||..|+|+.|.|.++.
T Consensus         5 p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a~   84 (110)
T 3s8s_A            5 PLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDI   84 (110)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            35799999999999999999999999999999983        6899999999999999999999999999999999997


Q ss_pred             CCC
Q psy10320         74 GID   76 (262)
Q Consensus        74 ~~~   76 (262)
                      ...
T Consensus        85 ~~~   87 (110)
T 3s8s_A           85 KGQ   87 (110)
T ss_dssp             TTH
T ss_pred             CCc
Confidence            553

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

Probab=99.84  E-value=1.5e-20  Score=127.90  Aligned_cols=74  Identities=31%  Similarity=0.575  Sum_probs=71.0

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.+.+|||||+|.+.++|+.|+..|||..|.|+.|.|.++...
T Consensus        30 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~  103 (108)
T 2jvo_A           30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKLP  103 (108)
T ss_dssp             SCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEETTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESCSCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEECCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecCC
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999764

>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=99.83  E-value=1.9e-20  Score=124.89  Aligned_cols=73  Identities=23%  Similarity=0.403  Sum_probs=69.9

Q ss_pred             cceEEEcCCCCCCCHHHHH----HHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLE----KFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~----~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      +++|||+|||+.+|+++|+    ++|+.||.|..|.|.     ++||||+|.+.++|+.|++.|||..|.|+.|.|.++.
T Consensus         9 ~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~   88 (96)
T 2dgx_A            9 GADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   88 (96)
T ss_dssp             CEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCCCeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcC
Confidence            6899999999999999999    999999999999996     8999999999999999999999999999999999997


Q ss_pred             CC
Q psy10320         74 GI   75 (262)
Q Consensus        74 ~~   75 (262)
                      ..
T Consensus        89 ~~   90 (96)
T 2dgx_A           89 GA   90 (96)
T ss_dssp             CS
T ss_pred             CC
Confidence            54

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.83  E-value=4.7e-20  Score=125.69  Aligned_cols=75  Identities=23%  Similarity=0.301  Sum_probs=70.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeC-cEEEEEeCChhhHHHHHHHhcCcccCC-----ceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-GFGFVEFEDYRDADDAVYELNGKSLLG-----ERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~-g~afV~f~~~~~a~~a~~~l~~~~~~g-----~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|..||+|..|.|.. |||||+|.+.++|+.||+.||+..|.|     +.|.|.++....
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~a~~~~   94 (108)
T 1x4c_A           15 ENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPRS   94 (108)
T ss_dssp             CCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETTTEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEESSCCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecCCEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEeCCCCC
Confidence            57999999999999999999999999999999976 999999999999999999999999999     999999998754


Q ss_pred             c
Q psy10320         77 R   77 (262)
Q Consensus        77 ~   77 (262)
                      .
T Consensus        95 ~   95 (108)
T 1x4c_A           95 P   95 (108)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.83  E-value=4.8e-20  Score=124.65  Aligned_cols=76  Identities=32%  Similarity=0.579  Sum_probs=71.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.      +|||||+|.+.++|+.|+..||+..|.|+.|.|.++....
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~   94 (103)
T 2cq3_A           15 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATARV   94 (103)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCSSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcccCC
Confidence            5899999999999999999999999999999995      7899999999999999999999999999999999998764


Q ss_pred             cc
Q psy10320         77 RS   78 (262)
Q Consensus        77 ~~   78 (262)
                      ..
T Consensus        95 ~~   96 (103)
T 2cq3_A           95 MT   96 (103)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

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

Probab=99.83  E-value=5.9e-20  Score=126.78  Aligned_cols=76  Identities=26%  Similarity=0.490  Sum_probs=70.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|..||.|..|.|.        +|||||+|.+.++|+.||+.|||..|.|+.|.|.++..
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   94 (115)
T 2dgo_A           15 HFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATR   94 (115)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESSC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            5799999999999999999999999999999984        58999999999999999999999999999999999987


Q ss_pred             CCcc
Q psy10320         75 IDRS   78 (262)
Q Consensus        75 ~~~~   78 (262)
                      ....
T Consensus        95 ~~~~   98 (115)
T 2dgo_A           95 KPPA   98 (115)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            6443

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

Probab=99.83  E-value=3.1e-20  Score=125.62  Aligned_cols=76  Identities=28%  Similarity=0.480  Sum_probs=71.2

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.|.      +|||||+|.+.++|+.|+..|||..|.|+.|.|.++...
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~   93 (103)
T 2d9p_A           14 QVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQRK   93 (103)
T ss_dssp             SCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeccc
Confidence            36899999999999999999999999999999985      689999999999999999999999999999999999875


Q ss_pred             Cc
Q psy10320         76 DR   77 (262)
Q Consensus        76 ~~   77 (262)
                      ..
T Consensus        94 ~~   95 (103)
T 2d9p_A           94 EE   95 (103)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

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

Probab=99.83  E-value=7.2e-20  Score=122.89  Aligned_cols=76  Identities=26%  Similarity=0.422  Sum_probs=71.0

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+..|||..|.|+.|.|.++.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   86 (99)
T 1whw_A            7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            36899999999999999999999999999999983        5899999999999999999999999999999999998


Q ss_pred             CCCc
Q psy10320         74 GIDR   77 (262)
Q Consensus        74 ~~~~   77 (262)
                      ....
T Consensus        87 ~~~~   90 (99)
T 1whw_A           87 IKKE   90 (99)
T ss_dssp             CCST
T ss_pred             CCcc
Confidence            7644

>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=99.83  E-value=3.9e-20  Score=120.59  Aligned_cols=71  Identities=35%  Similarity=0.609  Sum_probs=67.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+        .+|||||+|.+.++|+.|++.|||..|.|+.|.|.+++
T Consensus         7 ~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~ak   85 (85)
T 3mdf_A            7 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   85 (85)
T ss_dssp             SSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            589999999999999999999999999999998        37899999999999999999999999999999999874

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.83  E-value=5.8e-20  Score=124.24  Aligned_cols=75  Identities=28%  Similarity=0.453  Sum_probs=70.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.      +|||||+|.+.++|+.|+..||+..|.|+.|.|.++....
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~   94 (103)
T 2cqi_A           15 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATTPS   94 (103)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCTT
T ss_pred             CCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECCCCc
Confidence            5899999999999999999999999999999994      5899999999999999999999999999999999998754


Q ss_pred             c
Q psy10320         77 R   77 (262)
Q Consensus        77 ~   77 (262)
                      .
T Consensus        95 ~   95 (103)
T 2cqi_A           95 S   95 (103)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.83  E-value=9.4e-20  Score=125.59  Aligned_cols=74  Identities=24%  Similarity=0.379  Sum_probs=69.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|..||.|..|.|.       +|||||+|.+.++|+.|++.||+..|.|+.|.|.++...
T Consensus        15 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~   94 (114)
T 2do0_A           15 GSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDERA   94 (114)
T ss_dssp             CSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEcccC
Confidence            5799999999999999999999999999999984       589999999999999999999999999999999998754


Q ss_pred             C
Q psy10320         76 D   76 (262)
Q Consensus        76 ~   76 (262)
                      .
T Consensus        95 ~   95 (114)
T 2do0_A           95 L   95 (114)
T ss_dssp             C
T ss_pred             C
Confidence            3

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.83  E-value=1.2e-20  Score=127.68  Aligned_cols=77  Identities=23%  Similarity=0.374  Sum_probs=69.4

Q ss_pred             ccceEEEcCCCCC-CCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcC--cccCCceEEEEEccCCC
Q psy10320          2 VGTKVYIGGLPYG-VRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNG--KSLLGERVTVEIAKGID   76 (262)
Q Consensus         2 ~~~~l~V~nl~~~-~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~--~~~~g~~l~v~~~~~~~   76 (262)
                      .+++|||+|||++ +|+++|+++|+.||.|..|.|.  +|||||+|.+.++|+.|++.|++  ..|.|+.|.|.++....
T Consensus        24 p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~~~  103 (112)
T 1x4f_A           24 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEKYK  103 (112)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECSCS
T ss_pred             CCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEecCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEECcccc
Confidence            3679999999998 9999999999999999999995  79999999999999999998864  56999999999998654


Q ss_pred             cc
Q psy10320         77 RS   78 (262)
Q Consensus        77 ~~   78 (262)
                      ..
T Consensus       104 ~~  105 (112)
T 1x4f_A          104 KL  105 (112)
T ss_dssp             SS
T ss_pred             cc
Confidence            43

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

Probab=99.83  E-value=1.9e-20  Score=127.23  Aligned_cols=73  Identities=22%  Similarity=0.277  Sum_probs=68.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCC-ceeEEEee----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYG-RIRDVILK----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G-~v~~v~i~----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.|| +|..+.|.    +|||||+|.+.++|+.||+.|||..|.|+.|.|.++...
T Consensus        28 ~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a~~~  105 (111)
T 2jvr_A           28 RYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDDNP  105 (111)
T ss_dssp             CEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSCSSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEESCC-
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcCCCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCCC
Confidence            47999999999999999999999999 89999984    899999999999999999999999999999999998743

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

Probab=99.82  E-value=5.3e-20  Score=124.47  Aligned_cols=75  Identities=33%  Similarity=0.573  Sum_probs=70.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+..|||..|.|+.|.|.++..
T Consensus        13 ~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   92 (103)
T 2dnm_A           13 MITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVARY   92 (103)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEECSS
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEECCc
Confidence            5899999999999999999999999999999983        68999999999999999999999999999999999986


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus        93 ~~~   95 (103)
T 2dnm_A           93 GRR   95 (103)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            543

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

Probab=99.82  E-value=9.2e-20  Score=121.41  Aligned_cols=75  Identities=28%  Similarity=0.526  Sum_probs=70.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .+++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|+.|++.|||..|.|+.|.|.++.
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   83 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVT   83 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEESS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEcc
Confidence            36899999999999999999999999999999983        5799999999999999999999999999999999997


Q ss_pred             CCC
Q psy10320         74 GID   76 (262)
Q Consensus        74 ~~~   76 (262)
                      ...
T Consensus        84 ~~~   86 (95)
T 2dnz_A           84 ERL   86 (95)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            653

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=99.82  E-value=4.3e-20  Score=120.97  Aligned_cols=73  Identities=26%  Similarity=0.480  Sum_probs=67.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|+.|++.|||..|.|+.|.|.++..
T Consensus         6 ~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   85 (87)
T 3bs9_A            6 HFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWATR   85 (87)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC-
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEecCC
Confidence            5799999999999999999999999999999983        58999999999999999999999999999999999875


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      +
T Consensus        86 k   86 (87)
T 3bs9_A           86 K   86 (87)
T ss_dssp             -
T ss_pred             C
Confidence            3

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.82  E-value=6.4e-20  Score=122.63  Aligned_cols=74  Identities=24%  Similarity=0.422  Sum_probs=69.8

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccC--CceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLL--GERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~--g~~l~v~~~~~~   75 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.+.  +|||||+|.+.++|+.|++.||+..|.  |+.|.|.++.+.
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a~~~   93 (97)
T 1why_A           16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSG   93 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCCCCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEECCCC
Confidence            35899999999999999999999999999999996  679999999999999999999999999  999999999864

>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=99.82  E-value=8.1e-20  Score=124.84  Aligned_cols=74  Identities=45%  Similarity=0.746  Sum_probs=69.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.     ++||||+|.+.++|+.||+.||+..|.|+.|.|.++....
T Consensus        22 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~  100 (109)
T 1x4a_A           22 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRSGR  100 (109)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcccCC
Confidence            5799999999999999999999999999999984     6899999999999999999999999999999999998653

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

Probab=99.82  E-value=4.3e-20  Score=126.36  Aligned_cols=73  Identities=21%  Similarity=0.204  Sum_probs=69.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|  .++||||+|.+.++|+.|+..|||..|.|+.|.|+|+...
T Consensus        10 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   84 (111)
T 1whx_A           10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIG   84 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCCCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCCC
Confidence            579999999999999999999999999999999  4899999999999999999999999999999999999754

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

Probab=99.82  E-value=8e-20  Score=122.88  Aligned_cols=75  Identities=28%  Similarity=0.570  Sum_probs=70.0

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.|.       +|||||+|.+.++|+.|++.|||..|.|+.|.|.++.+
T Consensus        16 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   95 (100)
T 2do4_A           16 EKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAISNS   95 (100)
T ss_dssp             CCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            35899999999999999999999999999999984       48999999999999999999999999999999999986


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus        96 ~~   97 (100)
T 2do4_A           96 GP   97 (100)
T ss_dssp             CS
T ss_pred             CC
Confidence            53

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

Probab=99.82  E-value=1.1e-19  Score=125.33  Aligned_cols=75  Identities=39%  Similarity=0.585  Sum_probs=70.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.       +|||||+|.+.++|+.|++.|||..|.|+.|.|.++...
T Consensus         7 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   86 (116)
T 2fy1_A            7 PGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAKKP   86 (116)
T ss_dssp             CCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECCCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            5899999999999999999999999999999995       499999999999999999999999999999999999865


Q ss_pred             Cc
Q psy10320         76 DR   77 (262)
Q Consensus        76 ~~   77 (262)
                      ..
T Consensus        87 ~~   88 (116)
T 2fy1_A           87 SF   88 (116)
T ss_dssp             SC
T ss_pred             CC
Confidence            43

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

Probab=99.82  E-value=8.5e-20  Score=121.77  Aligned_cols=76  Identities=26%  Similarity=0.496  Sum_probs=71.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|++.|||..|+|+.|.|.++..
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   81 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSN   81 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcCC
Confidence            6899999999999999999999999999999983        68999999999999999999999999999999999987


Q ss_pred             CCcc
Q psy10320         75 IDRS   78 (262)
Q Consensus        75 ~~~~   78 (262)
                      ....
T Consensus        82 ~~~~   85 (96)
T 2x1f_A           82 SDIS   85 (96)
T ss_dssp             SSGG
T ss_pred             CCCC
Confidence            6543

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

Probab=99.82  E-value=4.6e-20  Score=124.56  Aligned_cols=75  Identities=33%  Similarity=0.569  Sum_probs=70.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|        .+|||||+|.+.++|+.|++.||+..|.|+.|.|.++..
T Consensus        12 ~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   91 (102)
T 2cqb_A           12 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKP   91 (102)
T ss_dssp             CSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEeCCC
Confidence            579999999999999999999999999999998        378999999999999999999999999999999999986


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus        92 ~~~   94 (102)
T 2cqb_A           92 MRI   94 (102)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            544

>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=99.82  E-value=4.2e-20  Score=122.53  Aligned_cols=75  Identities=28%  Similarity=0.412  Sum_probs=68.6

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCc-eeEEEe-eCcEEEEEeCChhhHHHHHHHhcC-cccCCceEEEEEccCCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGR-IRDVIL-KNGFGFVEFEDYRDADDAVYELNG-KSLLGERVTVEIAKGID   76 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~-v~~v~i-~~g~afV~f~~~~~a~~a~~~l~~-~~~~g~~l~v~~~~~~~   76 (262)
                      ..++|||+|||+++|+++|+++|+.||. |..+.+ .+|||||+|.+.++|+.|++.||| ..|.|+.|.|.++....
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~~~   84 (93)
T 2cqh_A            7 GMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKK   84 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEcCCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEccCcc
Confidence            3589999999999999999999999999 666655 599999999999999999999999 99999999999998653

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.82  E-value=1e-19  Score=123.51  Aligned_cols=75  Identities=31%  Similarity=0.457  Sum_probs=70.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+..||+..|.|+.|.|.++..
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   94 (105)
T 1x5u_A           15 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASA   94 (105)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCC
Confidence            5799999999999999999999999999999983        58999999999999999999999999999999999987


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus        95 ~~~   97 (105)
T 1x5u_A           95 HNK   97 (105)
T ss_dssp             TSC
T ss_pred             CCc
Confidence            544

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

Probab=99.82  E-value=9.2e-20  Score=122.13  Aligned_cols=76  Identities=25%  Similarity=0.510  Sum_probs=70.0

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEE
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVE   70 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~   70 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.|.           +|||||+|.+.++|+.|+..|||..|.|+.|.|.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   83 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVR   83 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            36899999999999999999999999999999884           3799999999999999999999999999999999


Q ss_pred             EccCCCc
Q psy10320         71 IAKGIDR   77 (262)
Q Consensus        71 ~~~~~~~   77 (262)
                      ++.....
T Consensus        84 ~a~~~~~   90 (98)
T 2cpf_A           84 ISERATK   90 (98)
T ss_dssp             CSSCSSC
T ss_pred             EccCCCC
Confidence            9986543

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

Probab=99.82  E-value=5.6e-20  Score=122.72  Aligned_cols=76  Identities=25%  Similarity=0.447  Sum_probs=70.2

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEE-Eee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v-~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .+++|||+|||+.+|+++|+++|+.||.|..| .|.        +|||||+|.++++|+.|+..|||..|.|+.|.|.++
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA   83 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            46899999999999999999999999999988 773        689999999999999999999999999999999999


Q ss_pred             cCCCc
Q psy10320         73 KGIDR   77 (262)
Q Consensus        73 ~~~~~   77 (262)
                      .....
T Consensus        84 ~~~~~   88 (96)
T 1x5t_A           84 FKKDS   88 (96)
T ss_dssp             CCCCC
T ss_pred             cccCC
Confidence            86543

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

Probab=99.82  E-value=1.5e-19  Score=124.96  Aligned_cols=73  Identities=32%  Similarity=0.608  Sum_probs=68.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.||..|++ .|.|+.|.|.++..
T Consensus        17 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~a~~   95 (116)
T 2cqd_A           17 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAYL   95 (116)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEESTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEEccc
Confidence            5899999999999999999999999999999983        57999999999999999999998 89999999999976


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus        96 ~~   97 (116)
T 2cqd_A           96 GA   97 (116)
T ss_dssp             TC
T ss_pred             CC
Confidence            53

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

Probab=99.82  E-value=1.5e-19  Score=121.36  Aligned_cols=74  Identities=32%  Similarity=0.714  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|++ |++..|.|+.|.|.++..
T Consensus        10 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~~a~~   88 (99)
T 2dgs_A           10 SNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKRAEP   88 (99)
T ss_dssp             CCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEECCeEEEEEECCC
Confidence            5899999999999999999999999999999983        6899999999999999997 999999999999999986


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus        89 ~~~   91 (99)
T 2dgs_A           89 RDS   91 (99)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            543

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

Probab=99.82  E-value=7.3e-20  Score=123.55  Aligned_cols=75  Identities=39%  Similarity=0.740  Sum_probs=70.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.++++|+.|++.||+..|.|+.|.|.++..
T Consensus        12 ~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   91 (102)
T 1x5s_A           12 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGK   91 (102)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEEC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            5799999999999999999999999999999993        57999999999999999999999999999999999986


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus        92 ~~~   94 (102)
T 1x5s_A           92 SSD   94 (102)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.82  E-value=1e-19  Score=122.10  Aligned_cols=74  Identities=28%  Similarity=0.575  Sum_probs=70.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.  +|||||+|.+.++|+.|++.|+|..|.|+.|.|.++....
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~~   90 (99)
T 2cpj_A           15 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSA   90 (99)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcCCCC
Confidence            4799999999999999999999999999999996  6999999999999999999999999999999999998653

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.81  E-value=8.3e-20  Score=125.77  Aligned_cols=75  Identities=48%  Similarity=0.817  Sum_probs=66.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCce-----EEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRR-----IRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~-----~~v~~~  185 (262)
                      ...++|||+|||..+++++|+++|++||.|..+.+...  ++|||+|++.++|.+||+.|||..|+|+.     |.|..+
T Consensus        14 r~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~--g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~v~~~   91 (115)
T 3beg_B           14 RSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD--GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVD   91 (115)
T ss_dssp             ---CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT--SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC--CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEEeccC
Confidence            44679999999999999999999999999999998765  99999999999999999999999999988     777766


Q ss_pred             CC
Q psy10320        186 KP  187 (262)
Q Consensus       186 ~~  187 (262)
                      .+
T Consensus        92 ~~   93 (115)
T 3beg_B           92 GP   93 (115)
T ss_dssp             C-
T ss_pred             CC
Confidence            54

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=99.81  E-value=1.3e-19  Score=123.05  Aligned_cols=75  Identities=23%  Similarity=0.416  Sum_probs=70.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCC---ceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLG---ERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g---~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.       +|||||+|.+.++|+.|++.|||..|.|   +.|.|.++
T Consensus        15 ~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~~a   94 (105)
T 2dnh_A           15 DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKFA   94 (105)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEEES
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEEEC
Confidence            5899999999999999999999999999999984       6899999999999999999999999988   99999999


Q ss_pred             cCCCc
Q psy10320         73 KGIDR   77 (262)
Q Consensus        73 ~~~~~   77 (262)
                      .....
T Consensus        95 ~~~~~   99 (105)
T 2dnh_A           95 DTDKE   99 (105)
T ss_dssp             CSSCC
T ss_pred             ccCcc
Confidence            87543

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.81  E-value=1.4e-19  Score=123.54  Aligned_cols=74  Identities=24%  Similarity=0.480  Sum_probs=70.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.  +|||||+|.+.++|+.|+..|+|..|.|+.|.|.++....
T Consensus        25 ~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~  100 (109)
T 1x4g_A           25 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESP  100 (109)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecCCCC
Confidence            5799999999999999999999999999999996  7999999999999999999999999999999999998654

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

Probab=99.81  E-value=9e-20  Score=121.21  Aligned_cols=71  Identities=28%  Similarity=0.578  Sum_probs=67.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|+.||+|..|.+.        +|||||+|.+.++|+.|++.||+..|.|+.|.|.+++
T Consensus        16 ~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~ak   94 (94)
T 2e5h_A           16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASIAI   94 (94)
T ss_dssp             TTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEECC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEecC
Confidence            5799999999999999999999999999999983        5899999999999999999999999999999999874

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

Probab=99.81  E-value=1e-19  Score=123.71  Aligned_cols=73  Identities=29%  Similarity=0.584  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+..|||..|.|+.|.|.++..
T Consensus        23 ~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~  102 (106)
T 1p27_B           23 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFV  102 (106)
T ss_dssp             BEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEESEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEeecC
Confidence            5789999999999999999999999999999984        68999999999999999999999999999999999976


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus       103 ~  103 (106)
T 1p27_B          103 R  103 (106)
T ss_dssp             S
T ss_pred             C
Confidence            4

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A

Probab=99.81  E-value=9.5e-20  Score=125.71  Aligned_cols=75  Identities=23%  Similarity=0.449  Sum_probs=69.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.||+.||+..|.|+.|.|.++..
T Consensus        25 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~  104 (115)
T 2cpz_A           25 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRS  104 (115)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            4799999999999999999999999999999883        47999999999999999999999999999999999986


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus       105 ~~~  107 (115)
T 2cpz_A          105 KND  107 (115)
T ss_dssp             SCC
T ss_pred             CCc
Confidence            543

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

Probab=99.81  E-value=7.3e-20  Score=123.77  Aligned_cols=74  Identities=27%  Similarity=0.433  Sum_probs=69.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||+|..|.|.        +|||||+|.+.++|+.|+..|||..|.|+.|.|.++..
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   94 (103)
T 2cq0_A           15 NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAKP   94 (103)
T ss_dssp             SEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEECCC
Confidence            5799999999999999999999999999999984        57999999999999999999999999999999999986


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus        95 ~~   96 (103)
T 2cq0_A           95 ST   96 (103)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

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

Probab=99.81  E-value=8.5e-20  Score=124.55  Aligned_cols=73  Identities=33%  Similarity=0.617  Sum_probs=69.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.      +|||||+|.+.++|+.|+..|||..|+|+.|.|.++..+
T Consensus        29 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~  107 (109)
T 2err_A           29 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATAR  107 (109)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECCCS
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            5799999999999999999999999999999994      799999999999999999999999999999999998754

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.81  E-value=1.1e-19  Score=127.50  Aligned_cols=76  Identities=28%  Similarity=0.559  Sum_probs=71.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|++.|||..|.|+.|.|.++..
T Consensus        22 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  101 (126)
T 3ex7_B           22 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFV  101 (126)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEESEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEecC
Confidence            5799999999999999999999999999999984        78999999999999999999999999999999999986


Q ss_pred             CCcc
Q psy10320         75 IDRS   78 (262)
Q Consensus        75 ~~~~   78 (262)
                      ....
T Consensus       102 ~~~~  105 (126)
T 3ex7_B          102 RGPP  105 (126)
T ss_dssp             SSSC
T ss_pred             CCCC
Confidence            5443

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

Probab=99.81  E-value=4.3e-20  Score=123.98  Aligned_cols=73  Identities=23%  Similarity=0.381  Sum_probs=69.0

Q ss_pred             cceEEEcCCCC------CCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCC-ceE
Q psy10320          3 GTKVYIGGLPY------GVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLG-ERV   67 (262)
Q Consensus         3 ~~~l~V~nl~~------~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g-~~l   67 (262)
                      .++|||+|||+      .+++++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|++.|||..|.| +.|
T Consensus         6 ~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~l   85 (100)
T 3ns6_A            6 DQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRL   85 (100)
T ss_dssp             GGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSCBC
T ss_pred             CcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCeEE
Confidence            68999999999      99999999999999999999983        7999999999999999999999999999 999


Q ss_pred             EEEEccCC
Q psy10320         68 TVEIAKGI   75 (262)
Q Consensus        68 ~v~~~~~~   75 (262)
                      .|.++.+.
T Consensus        86 ~V~~a~~~   93 (100)
T 3ns6_A           86 FLYTMKDV   93 (100)
T ss_dssp             EEEESHHH
T ss_pred             EEEECchh
Confidence            99998754

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

Probab=99.81  E-value=1.2e-19  Score=120.89  Aligned_cols=72  Identities=36%  Similarity=0.493  Sum_probs=67.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|+.|++.|||..|.|+.|.|.+++.
T Consensus        15 ~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   94 (95)
T 2cqc_A           15 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSGPSS   94 (95)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecCC
Confidence            5799999999999999999999999999999983        57999999999999999999999999999999998863

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=99.81  E-value=1.4e-19  Score=123.31  Aligned_cols=71  Identities=25%  Similarity=0.500  Sum_probs=67.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.       +|||||+|.+.++|+.|++.|||..|.|+.|.|.++.
T Consensus        29 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  106 (107)
T 3ulh_A           29 GGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT  106 (107)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeC
Confidence            5799999999999999999999999999999985       7899999999999999999999999999999999875

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.81  E-value=1.4e-19  Score=120.46  Aligned_cols=71  Identities=30%  Similarity=0.425  Sum_probs=67.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|+.||+|..|.|.       +|||||+|.++++|+.|++.||+..|.|+.|.|.++.
T Consensus        16 ~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   93 (95)
T 2ywk_A           16 DRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGPS   93 (95)
T ss_dssp             GGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEcC
Confidence            5799999999999999999999999999999984       5899999999999999999999999999999999875

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.81  E-value=1e-18  Score=119.00  Aligned_cols=77  Identities=48%  Similarity=0.800  Sum_probs=71.6

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCC-----ceEEEee
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNG-----RRIRLIE  184 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g-----~~~~v~~  184 (262)
                      ....++|||+|||..+++++|+++|.+||.|..+.+...  ++|||+|.+.++|++||+.|||..|.|     +.|.|.+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~--g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~   89 (108)
T 1x4c_A           12 RRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD--GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKV   89 (108)
T ss_dssp             CSCCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT--TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC--CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEe
Confidence            345679999999999999999999999999999999865  999999999999999999999999999     9999999


Q ss_pred             cCCC
Q psy10320        185 DKPR  188 (262)
Q Consensus       185 ~~~~  188 (262)
                      +.++
T Consensus        90 a~~~   93 (108)
T 1x4c_A           90 DGPR   93 (108)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            8773

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

Probab=99.81  E-value=8.9e-20  Score=122.72  Aligned_cols=73  Identities=19%  Similarity=0.372  Sum_probs=68.2

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..++|||+|||+.+|+++|.++|+.||+|..|.|.       +|||||+|.++++|+.|+. +++..|.|+.|.|.++..
T Consensus        10 ~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~~~~~   88 (103)
T 1s79_A           10 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKDD   88 (103)
T ss_dssp             GGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEEHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEchH
Confidence            35899999999999999999999999999999984       6999999999999999996 999999999999998876


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        89 ~   89 (103)
T 1s79_A           89 Y   89 (103)
T ss_dssp             H
T ss_pred             H
Confidence            4

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

Probab=99.81  E-value=6.3e-20  Score=123.64  Aligned_cols=72  Identities=24%  Similarity=0.361  Sum_probs=68.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.  +|||||+|.+.++|..|+..|||..|+|+.|.|.++..
T Consensus        27 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  100 (101)
T 2la4_A           27 VTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGKE  100 (101)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCCC
T ss_pred             CCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEecCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEeccC
Confidence            5799999999999999999999999999999984  89999999999999999999999999999999998864

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D*

Probab=99.81  E-value=1.8e-19  Score=123.32  Aligned_cols=73  Identities=23%  Similarity=0.460  Sum_probs=69.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+..|||..|.|+.|.|.++..
T Consensus        26 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  105 (110)
T 1oo0_B           26 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFV  105 (110)
T ss_dssp             BEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEccc
Confidence            5799999999999999999999999999999983        68999999999999999999999999999999999976


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus       106 ~  106 (110)
T 1oo0_B          106 K  106 (110)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.81  E-value=1.3e-19  Score=122.78  Aligned_cols=73  Identities=19%  Similarity=0.325  Sum_probs=68.8

Q ss_pred             cceEEEcCCCCCC------CHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCc-eEEE
Q psy10320          3 GTKVYIGGLPYGV------RERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGE-RVTV   69 (262)
Q Consensus         3 ~~~l~V~nl~~~~------t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~-~l~v   69 (262)
                      +++|||+|||+.+      |+++|+++|+.||.|..|.|.      +|||||+|.+.++|+.|+..|||..|.|+ .|.|
T Consensus        15 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l~V   94 (105)
T 2nlw_A           15 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   94 (105)
T ss_dssp             CSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCEEEE
T ss_pred             CCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCceEEE
Confidence            5899999999999      789999999999999999985      69999999999999999999999999998 9999


Q ss_pred             EEccCC
Q psy10320         70 EIAKGI   75 (262)
Q Consensus        70 ~~~~~~   75 (262)
                      .++...
T Consensus        95 ~~a~~~  100 (105)
T 2nlw_A           95 NLFTDF  100 (105)
T ss_dssp             ECSCCC
T ss_pred             EEcchH
Confidence            998754

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.80  E-value=1.4e-19  Score=117.93  Aligned_cols=71  Identities=27%  Similarity=0.448  Sum_probs=67.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHh-cCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYEL-NGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l-~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.  +|||||+|.+.++|+.|+..| ++..|.|+.|.|.+++
T Consensus        12 ~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~ak   85 (85)
T 2ytc_A           12 ITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWGR   85 (85)
T ss_dssp             CCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGGGTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEECC
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECCCCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEecC
Confidence            5799999999999999999999999999999995  699999999999999999988 9999999999999874

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

Probab=99.80  E-value=2.9e-19  Score=122.50  Aligned_cols=75  Identities=24%  Similarity=0.457  Sum_probs=70.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhc------CcccCCceEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELN------GKSLLGERVT   68 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~------~~~~~g~~l~   68 (262)
                      .++|||+|||+.+|+++|+++|..||.|..|.|.        +|||||+|.+.++|+.||..||      +..|.|+.|.
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~l~   94 (111)
T 1x4h_A           15 GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLK   94 (111)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEEEE
Confidence            5799999999999999999999999999999984        7899999999999999999999      9999999999


Q ss_pred             EEEccCCCc
Q psy10320         69 VEIAKGIDR   77 (262)
Q Consensus        69 v~~~~~~~~   77 (262)
                      |.++.....
T Consensus        95 v~~a~~~~~  103 (111)
T 1x4h_A           95 VDLAVTRDE  103 (111)
T ss_dssp             EECCCCCCC
T ss_pred             EEECCCCcc
Confidence            999986533

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

Probab=99.80  E-value=1.8e-19  Score=119.31  Aligned_cols=74  Identities=24%  Similarity=0.430  Sum_probs=69.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.      +|||||+|.+.++|+.|++.||+..|.|+.|.|.++....
T Consensus         8 ~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~~   87 (92)
T 2dgv_A            8 ACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDRNAS   87 (92)
T ss_dssp             CCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECSCCS
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCCC
Confidence            5899999999999999999999999999999984      6999999999999999999999999999999999998653

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

Probab=99.80  E-value=1.3e-19  Score=121.07  Aligned_cols=72  Identities=28%  Similarity=0.456  Sum_probs=66.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe----eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i----~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.||.|. +.+    .+|||||+|.+.++|+.|+..|||..|.|+.|.|.++...
T Consensus        19 ~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~   94 (97)
T 2e5j_A           19 AADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQQ   94 (97)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECCCC
T ss_pred             CCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcCCCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCC
Confidence            68999999999999999999999999986 444    3899999999999999999999999999999999999764

>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=99.80  E-value=2.8e-20  Score=122.52  Aligned_cols=72  Identities=22%  Similarity=0.374  Sum_probs=63.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCC--ceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYG--RIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G--~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .+|||+|||+.+|+++|+++|+.||  .|..|.+.        +|||||+|.+.++|+.|++.|||..|+|+.|.|.++.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~   81 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSN   81 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC-
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECC
Confidence            4899999999999999999999999  99999873        6899999999999999999999999999999999987


Q ss_pred             CC
Q psy10320         74 GI   75 (262)
Q Consensus        74 ~~   75 (262)
                      +.
T Consensus        82 ~~   83 (90)
T 3p5t_L           82 KL   83 (90)
T ss_dssp             --
T ss_pred             CC
Confidence            64

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.80  E-value=1.6e-19  Score=122.80  Aligned_cols=73  Identities=30%  Similarity=0.563  Sum_probs=68.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|++.|+|..|.|+.|.|.++..
T Consensus        26 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~  105 (108)
T 2jrs_A           26 PMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVTE  105 (108)
T ss_dssp             CEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEECSCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEccc
Confidence            5799999999999999999999999999999984        58999999999999999999999999999999999875


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      +
T Consensus       106 k  106 (108)
T 2jrs_A          106 R  106 (108)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.80  E-value=1.5e-19  Score=125.98  Aligned_cols=75  Identities=17%  Similarity=0.329  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHH----HHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLE----KFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~----~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+++++|+    ++|+.||.|.+|.+.     +|||||+|.+.++|..|+..|||..|.|+.|.|.++.
T Consensus        29 ~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~a~  108 (127)
T 2a3j_A           29 SQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSE  108 (127)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECCCCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEeccCCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEEcc
Confidence            5799999999999999876    699999999999883     7999999999999999999999999999999999998


Q ss_pred             CCCc
Q psy10320         74 GIDR   77 (262)
Q Consensus        74 ~~~~   77 (262)
                      ....
T Consensus       109 ~~~~  112 (127)
T 2a3j_A          109 TPQS  112 (127)
T ss_dssp             CCCH
T ss_pred             Ccch
Confidence            6543

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

Probab=99.80  E-value=1.8e-19  Score=120.85  Aligned_cols=71  Identities=25%  Similarity=0.423  Sum_probs=66.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeE--------EEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCce
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRD--------VILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGER   66 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~--------v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~   66 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..        |.|.        +|||||+|.+.++|+.|++.|||..|.|+.
T Consensus        13 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~g~~   92 (99)
T 2la6_A           13 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNP   92 (99)
T ss_dssp             CSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSSSSB
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCcE
Confidence            589999999999999999999999999998        8773        689999999999999999999999999999


Q ss_pred             EEEEEcc
Q psy10320         67 VTVEIAK   73 (262)
Q Consensus        67 l~v~~~~   73 (262)
                      |.|.+++
T Consensus        93 l~V~~A~   99 (99)
T 2la6_A           93 IKVSFAT   99 (99)
T ss_dssp             CEEEECC
T ss_pred             EEEEecC
Confidence            9999874

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A

Probab=99.80  E-value=2.7e-19  Score=117.66  Aligned_cols=72  Identities=24%  Similarity=0.548  Sum_probs=67.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|+.|+ .|||..|.|+.|.|.++..
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a~~   84 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPKRT   84 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEETTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEccC
Confidence            5799999999999999999999999999999883        689999999999999999 9999999999999999875


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        85 ~   85 (89)
T 3ucg_A           85 N   85 (89)
T ss_dssp             T
T ss_pred             C
Confidence            4

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

Probab=99.80  E-value=1.3e-19  Score=121.66  Aligned_cols=74  Identities=24%  Similarity=0.402  Sum_probs=68.9

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCcee-EEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCce----EE
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIR-DVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGER----VT   68 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~-~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~----l~   68 (262)
                      .+++|||+|||+.+|+++|+++|+.||.|. .|.|.        +|||||+|.+.++|+.|++.|||..|.|+.    |.
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l~   87 (99)
T 2div_A            8 MAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRFK   87 (99)
T ss_dssp             SSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEECC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeEE
Confidence            468999999999999999999999999999 99883        489999999999999999999999999999    99


Q ss_pred             EEEccCC
Q psy10320         69 VEIAKGI   75 (262)
Q Consensus        69 v~~~~~~   75 (262)
                      |.++...
T Consensus        88 v~~a~~~   94 (99)
T 2div_A           88 LNYATYS   94 (99)
T ss_dssp             EEETTCC
T ss_pred             EeecCCC
Confidence            9998754

>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=99.80  E-value=1.4e-19  Score=123.89  Aligned_cols=75  Identities=16%  Similarity=0.313  Sum_probs=69.8

Q ss_pred             ccceEEEcCCCCCCCHHHHH---HHHhcCCceeEEEee-----------CcEEEEEeCChhhHHHHHHHhcCcccCCceE
Q psy10320          2 VGTKVYIGGLPYGVRERDLE---KFVKGYGRIRDVILK-----------NGFGFVEFEDYRDADDAVYELNGKSLLGERV   67 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~---~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l   67 (262)
                      ..++|||+|||+.+|+++|+   ++|..||+|..|.|.           +|||||+|.+.++|+.||+.|||..|+|+.|
T Consensus        14 ~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l   93 (111)
T 2cpi_A           14 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL   93 (111)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEEE
Confidence            35799999999999999999   999999999999984           2799999999999999999999999999999


Q ss_pred             EEEEccCCC
Q psy10320         68 TVEIAKGID   76 (262)
Q Consensus        68 ~v~~~~~~~   76 (262)
                      .|.++..+.
T Consensus        94 ~V~~a~~k~  102 (111)
T 2cpi_A           94 KASLGTTKY  102 (111)
T ss_dssp             EEESCCCCS
T ss_pred             EEEeccccc
Confidence            999998764

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.80  E-value=3.6e-19  Score=118.98  Aligned_cols=75  Identities=21%  Similarity=0.458  Sum_probs=70.7

Q ss_pred             cceEEEcCCCCCCCHHHHH----HHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLE----KFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~----~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      +++|||+|||+.+|+++|+    ++|+.||.|..|.+.     +|||||+|.+.++|+.|+..|||..|.|+.|.|.++.
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   87 (97)
T 1nu4_A            8 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK   87 (97)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcCCCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEEEcc
Confidence            5899999999999999999    999999999999985     7999999999999999999999999999999999998


Q ss_pred             CCCc
Q psy10320         74 GIDR   77 (262)
Q Consensus        74 ~~~~   77 (262)
                      ....
T Consensus        88 ~~~~   91 (97)
T 1nu4_A           88 TDSD   91 (97)
T ss_dssp             SCCT
T ss_pred             CCCc
Confidence            7543

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.80  E-value=2.3e-19  Score=123.52  Aligned_cols=72  Identities=24%  Similarity=0.338  Sum_probs=65.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeC-cEEEEEeCChhhHHHHHHHhcCcccCCce-----EEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-GFGFVEFEDYRDADDAVYELNGKSLLGER-----VTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~-g~afV~f~~~~~a~~a~~~l~~~~~~g~~-----l~v~~~~~   74 (262)
                      .++|||+|||+++|+++|+++|+.||+|..|.|.. |||||+|.+.++|+.||+.|||..|+|+.     |.|.....
T Consensus        16 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~v~~~~~   93 (115)
T 3beg_B           16 ENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGP   93 (115)
T ss_dssp             -CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTTSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEEECC-
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecCCEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEEeccCCC
Confidence            57999999999999999999999999999999976 99999999999999999999999999998     66666554

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A

Probab=99.80  E-value=3.1e-19  Score=121.30  Aligned_cols=75  Identities=23%  Similarity=0.464  Sum_probs=69.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCccc---CCceEEEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSL---LGERVTVEI   71 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~---~g~~l~v~~   71 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+..||+..+   .|+.|.|.+
T Consensus        13 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~   92 (106)
T 2dgp_A           13 AIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQVKP   92 (106)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEEEEE
Confidence            5799999999999999999999999999999983        58999999999999999999999887   889999999


Q ss_pred             ccCCCc
Q psy10320         72 AKGIDR   77 (262)
Q Consensus        72 ~~~~~~   77 (262)
                      +.....
T Consensus        93 a~~~~~   98 (106)
T 2dgp_A           93 ADSESR   98 (106)
T ss_dssp             CCCCSC
T ss_pred             CCcccc
Confidence            986543

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

Probab=99.80  E-value=2.4e-19  Score=121.48  Aligned_cols=75  Identities=25%  Similarity=0.371  Sum_probs=69.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhc-CCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcc-cCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKG-YGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKS-LLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~-~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~-~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|.. ||.|..|.|.       +|||||+|.+.++|+.|+..|++.. |.|+.|.|.++.
T Consensus         9 ~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~a~   88 (104)
T 2dhg_A            9 EYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVAI   88 (104)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCBCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEEcc
Confidence            589999999999999999999999 9999999983       7899999999999999999999999 999999999997


Q ss_pred             CCCc
Q psy10320         74 GIDR   77 (262)
Q Consensus        74 ~~~~   77 (262)
                      ....
T Consensus        89 ~~~~   92 (104)
T 2dhg_A           89 PKAS   92 (104)
T ss_dssp             CCCS
T ss_pred             CCCc
Confidence            6543

>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=99.80  E-value=1.7e-19  Score=122.11  Aligned_cols=76  Identities=18%  Similarity=0.382  Sum_probs=69.1

Q ss_pred             cceEEE--cCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCccc-----CCceEEEEEcc
Q psy10320          3 GTKVYI--GGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSL-----LGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V--~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~-----~g~~l~v~~~~   73 (262)
                      +.+|||  +||++.+|+++|+++|++||+|..|.|.  +|||||+|.+.++|++|++.|||..|     .|..|.|.++.
T Consensus        25 t~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~v~~a~  104 (114)
T 2cq2_A           25 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVE  104 (114)
T ss_dssp             CSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEEES
T ss_pred             CCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEEecc
Confidence            468999  7799999999999999999999999985  78999999999999999999999987     68899999998


Q ss_pred             CCCcc
Q psy10320         74 GIDRS   78 (262)
Q Consensus        74 ~~~~~   78 (262)
                      .....
T Consensus       105 ~~p~~  109 (114)
T 2cq2_A          105 KVQWS  109 (114)
T ss_dssp             CCCCS
T ss_pred             cCccc
Confidence            65443

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A

Probab=99.79  E-value=1.5e-19  Score=126.82  Aligned_cols=73  Identities=36%  Similarity=0.500  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||+|..|.|.        +|||||+|.+.++|+.||..|||..|.|+.|.|.++..
T Consensus        46 ~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~a~~  125 (129)
T 2kxn_B           46 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSIT  125 (129)
T ss_dssp             SSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESCCSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEecC
Confidence            5799999999999999999999999999999983        68999999999999999999999999999999999876


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      +
T Consensus       126 ~  126 (129)
T 2kxn_B          126 K  126 (129)
T ss_dssp             S
T ss_pred             C
Confidence            4

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=2.2e-19  Score=121.69  Aligned_cols=76  Identities=28%  Similarity=0.525  Sum_probs=70.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|+.|++.|||..|.|+.|.|.++..
T Consensus         8 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   87 (104)
T 1p1t_A            8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAAS   87 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTC
T ss_pred             ccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCCC
Confidence            4799999999999999999999999999999984        68999999999999999999999999999999999987


Q ss_pred             CCcc
Q psy10320         75 IDRS   78 (262)
Q Consensus        75 ~~~~   78 (262)
                      ....
T Consensus        88 ~~~~   91 (104)
T 1p1t_A           88 EKNK   91 (104)
T ss_dssp             TTHH
T ss_pred             ccch
Confidence            6544

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

Probab=99.79  E-value=3.4e-19  Score=122.54  Aligned_cols=75  Identities=28%  Similarity=0.434  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCcee--------EEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCce
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIR--------DVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGER   66 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~--------~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~   66 (262)
                      .++|||+|||+.+|+++|+++|+.||.|.        .|.|.        +|||||+|.+.++|+.||..|||..|.|+.
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   94 (113)
T 2cpe_A           15 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSK   94 (113)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccCCCE
Confidence            57999999999999999999999999998        57773        689999999999999999999999999999


Q ss_pred             EEEEEccCCCc
Q psy10320         67 VTVEIAKGIDR   77 (262)
Q Consensus        67 l~v~~~~~~~~   77 (262)
                      |.|.++.....
T Consensus        95 l~V~~a~~~~~  105 (113)
T 2cpe_A           95 LKVSLARKKPP  105 (113)
T ss_dssp             CEEECSSCCCC
T ss_pred             EEEEECCCCCC
Confidence            99999986543

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

Probab=99.79  E-value=5.4e-19  Score=113.51  Aligned_cols=73  Identities=16%  Similarity=0.333  Sum_probs=65.9

Q ss_pred             ceEEEcCCCCCCCHHH----HHHHHhcC-CceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcc
Q psy10320          4 TKVYIGGLPYGVRERD----LEKFVKGY-GRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRS   78 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~----l~~~F~~~-G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~   78 (262)
                      |.|||+|||..+++++    |.++|+.| |+|.+|.  .|+|||.|.+.++|..|++.|+|..+.|+.|.|.+++.....
T Consensus        10 T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~Vt--gG~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A~~~sd~   87 (96)
T 2diu_A           10 TLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSIT--GCSAILRFINQDSAERAQKRMENEDVFGNRIIVSFTPKNREL   87 (96)
T ss_dssp             EEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECC--TTCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESSCCSCCC
T ss_pred             eEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEe--cCEEEEEECCHHHHHHHHHHhcCCccCCceEEEEecCCCcce
Confidence            4599999999999998    55899999 5999983  499999999999999999999999999999999999876443

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

Probab=99.79  E-value=7e-19  Score=119.79  Aligned_cols=75  Identities=28%  Similarity=0.584  Sum_probs=70.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---------CcEEEEEeCChhhHHHHHHHh-cCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---------NGFGFVEFEDYRDADDAVYEL-NGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~a~~a~~~l-~~~~~~g~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.         +|||||+|.+.++|+.|+..| |+..|.|+.|.|.++
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v~~a   94 (107)
T 2cph_A           15 TSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWA   94 (107)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEEC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEEEeC
Confidence            5899999999999999999999999999999983         589999999999999999999 999999999999999


Q ss_pred             cCCCc
Q psy10320         73 KGIDR   77 (262)
Q Consensus        73 ~~~~~   77 (262)
                      .....
T Consensus        95 ~~~~~   99 (107)
T 2cph_A           95 DSEVT   99 (107)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            87543

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

Probab=99.79  E-value=7e-19  Score=125.57  Aligned_cols=76  Identities=29%  Similarity=0.503  Sum_probs=70.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||+|..|.|.        +|||||+|.+.++|.+|+..|||..|.|+.|.|.++..
T Consensus        42 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  121 (139)
T 1u6f_A           42 LRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAAS  121 (139)
T ss_dssp             TSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            5799999999999999999999999999999983        68999999999999999999999999999999999987


Q ss_pred             CCcc
Q psy10320         75 IDRS   78 (262)
Q Consensus        75 ~~~~   78 (262)
                      ....
T Consensus       122 ~~~~  125 (139)
T 1u6f_A          122 GHQR  125 (139)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            6443

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=6.4e-19  Score=120.37  Aligned_cols=76  Identities=28%  Similarity=0.418  Sum_probs=69.5

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCc-eeEEEee---------CcEEEEEeCChhhHHHHHHHhc--CcccCCceEEE
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGR-IRDVILK---------NGFGFVEFEDYRDADDAVYELN--GKSLLGERVTV   69 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~-v~~v~i~---------~g~afV~f~~~~~a~~a~~~l~--~~~~~g~~l~v   69 (262)
                      ..++|||+|||+.+|+++|+++|..||. |..|.+.         +|||||+|.+.++|+.|+..|+  +..|.|+.|.|
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V   86 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAV   86 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEE
Confidence            3689999999999999999999999998 9999884         6899999999999999999996  58999999999


Q ss_pred             EEccCCCc
Q psy10320         70 EIAKGIDR   77 (262)
Q Consensus        70 ~~~~~~~~   77 (262)
                      .++.+...
T Consensus        87 ~~a~~~~~   94 (109)
T 2dis_A           87 DWAEPEID   94 (109)
T ss_dssp             EESCSSCS
T ss_pred             EEcCCCCC
Confidence            99986543

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.79  E-value=5.3e-19  Score=122.45  Aligned_cols=73  Identities=19%  Similarity=0.369  Sum_probs=67.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---CcE-EEEEeCChhhHHHHHHHhcCcccCC--ceEEEEEccCCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---NGF-GFVEFEDYRDADDAVYELNGKSLLG--ERVTVEIAKGID   76 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---~g~-afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~~~~~   76 (262)
                      ..|||+||++.+|+++|.++|++||.|.+|.|.   +|+ |||+|.++++|+.|++.|||..|.|  +.|.|++++...
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak~~~  107 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTS  107 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECSCSS
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCCCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecCCCc
Confidence            368899999999999999999999999999884   577 9999999999999999999999988  899999998753

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.79  E-value=2.5e-19  Score=124.21  Aligned_cols=71  Identities=27%  Similarity=0.458  Sum_probs=66.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+++|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|++.|||..|+|+.|.|++++
T Consensus        40 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~ak  118 (118)
T 2khc_A           40 GCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQLKK  118 (118)
T ss_dssp             SEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEEEC-
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEecC
Confidence            4799999999999999999999999999999983        6899999999999999999999999999999999874

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

Probab=99.79  E-value=1.3e-19  Score=116.84  Aligned_cols=67  Identities=21%  Similarity=0.341  Sum_probs=62.8

Q ss_pred             cceEEEcCCCCCC------CHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCc-eEEE
Q psy10320          3 GTKVYIGGLPYGV------RERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGE-RVTV   69 (262)
Q Consensus         3 ~~~l~V~nl~~~~------t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~-~l~v   69 (262)
                      +++|||+|||+.+      |+++|+++|+.||+|..|.|.      +|||||+|.+.++|+.|+..|||..|.|+ .|.|
T Consensus         1 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A            1 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            4799999999999      789999999999999999984      69999999999999999999999999999 8865

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=6.5e-19  Score=119.26  Aligned_cols=73  Identities=36%  Similarity=0.657  Sum_probs=68.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|+.|| |..|.|.         +|||||+|.+.++|+.|| .||+..|.|+.|.|.++.
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~   92 (104)
T 1wi8_A           15 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVAD   92 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeCCcEEEEEEcc
Confidence            57999999999999999999999999 9999983         679999999999999999 999999999999999998


Q ss_pred             CCCc
Q psy10320         74 GIDR   77 (262)
Q Consensus        74 ~~~~   77 (262)
                      ....
T Consensus        93 ~~~~   96 (104)
T 1wi8_A           93 QAQD   96 (104)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            6543

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

Probab=99.79  E-value=7e-19  Score=118.86  Aligned_cols=73  Identities=30%  Similarity=0.582  Sum_probs=67.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.|| |..|.|.        +|||||+|.+.++|+.|+ .||+..|.|+.|.|.++..
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~   92 (103)
T 2dng_A           15 PYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLGDRSLRVDIAEG   92 (103)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEETTEECEEEECCC
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeECCeEEEEEEecC
Confidence            57999999999999999999999997 9999883        689999999999999999 9999999999999999986


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus        93 ~~~   95 (103)
T 2dng_A           93 RKQ   95 (103)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

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

Probab=99.78  E-value=5.9e-19  Score=121.52  Aligned_cols=73  Identities=32%  Similarity=0.550  Sum_probs=68.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|| .|||..|.|+.|.|.++..
T Consensus        25 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~  103 (114)
T 2cq4_A           25 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQA  103 (114)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEecCC
Confidence            4799999999999999999999999999999983        689999999999999999 9999999999999999976


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus       104 ~~  105 (114)
T 2cq4_A          104 EK  105 (114)
T ss_dssp             HH
T ss_pred             Cc
Confidence            43

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

Probab=99.78  E-value=1.1e-18  Score=121.93  Aligned_cols=73  Identities=23%  Similarity=0.470  Sum_probs=69.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..|.|.       +|||||+|.+.++|+.|+..|||..|.|+.|.|.++...
T Consensus        35 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~  114 (124)
T 2kt5_A           35 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQ  114 (124)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEECCT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeCCC
Confidence            5799999999999999999999999999999983       689999999999999999999999999999999999864

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

Probab=99.78  E-value=5e-19  Score=128.14  Aligned_cols=73  Identities=22%  Similarity=0.381  Sum_probs=68.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCC--ceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYG--RIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G--~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|+.||  .|..|.|.        +|||||+|.+.++|+.||..|||..|+|+.|.|.++
T Consensus        55 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~a  134 (156)
T 3n9u_C           55 RAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPA  134 (156)
T ss_dssp             -CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEEc
Confidence            37999999999999999999999999  89999983        689999999999999999999999999999999999


Q ss_pred             cCC
Q psy10320         73 KGI   75 (262)
Q Consensus        73 ~~~   75 (262)
                      ...
T Consensus       135 ~~~  137 (156)
T 3n9u_C          135 TRQ  137 (156)
T ss_dssp             CHH
T ss_pred             CCC
Confidence            753

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.78  E-value=9.6e-19  Score=125.68  Aligned_cols=73  Identities=16%  Similarity=0.292  Sum_probs=67.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee----CcEEEEEeCChhhHHHHHHHhcCcccCC--ceEEEEEccCCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK----NGFGFVEFEDYRDADDAVYELNGKSLLG--ERVTVEIAKGID   76 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~----~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~~~~~   76 (262)
                      .+|||+||++.+|+++|+++|++||+|..|.|.    +|||||+|.+.++|+.|++.|||..|.|  +.|.|++++...
T Consensus        47 l~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~~~  125 (164)
T 1sjr_A           47 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTS  125 (164)
T ss_dssp             EEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESSSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSSSS
T ss_pred             EEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecCCc
Confidence            479999999999999999999999999999983    5799999999999999999999999966  999999998764

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.78  E-value=1.8e-19  Score=120.66  Aligned_cols=73  Identities=25%  Similarity=0.429  Sum_probs=66.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|..||.|..+.+        .+|||||+|.+.++|+.|++.|||..|.|+.|.|+++..
T Consensus        15 ~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~   94 (98)
T 2cqp_A           15 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGSG   94 (98)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEESSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcCC
Confidence            479999999999999999999999999875544        269999999999999999999999999999999999875


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        95 ~   95 (98)
T 2cqp_A           95 P   95 (98)
T ss_dssp             S
T ss_pred             C
Confidence            3

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

Probab=99.78  E-value=3.6e-19  Score=126.02  Aligned_cols=120  Identities=22%  Similarity=0.272  Sum_probs=73.8

Q ss_pred             cEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEE
Q psy10320         38 GFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLI  117 (262)
Q Consensus        38 g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  117 (262)
                      .++|++|++...+..|+..++|....|..- +.+.                                ...+......+||
T Consensus         5 ~~~~~~~~~~~~~~~a~~~~~g~~~~g~~~-~~~~--------------------------------~~~~~~~~~~~l~   51 (135)
T 2lea_A            5 HHHHHHSSGLVPRGSHMASMTGGQQMGRGS-MSYG--------------------------------RPPPDVEGMTSLK   51 (135)
T ss_dssp             -------------------------------CCSC--------------------------------CSCSSGGGCCCEE
T ss_pred             ccccccccCCCchhhhhhhccCCCCCCCCC-CCcC--------------------------------CCCCCCCCCCEEE
Confidence            467889999999999998888865444320 0000                                0112223356899


Q ss_pred             EcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        118 VENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       118 v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      |+|||..+++++|+++|+.||.|..+.+.     +..+|+|||+|.+.++|..|+..|+|..+.|+.|.|..+++...
T Consensus        52 V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~~~~  129 (135)
T 2lea_A           52 VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARYGRP  129 (135)
T ss_dssp             EECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECCCCCC
T ss_pred             EeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCCC
Confidence            99999999999999999999999999886     34678999999999999999999999999999999999987544

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.78  E-value=4e-19  Score=120.52  Aligned_cols=74  Identities=23%  Similarity=0.481  Sum_probs=68.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||+|..|.|.        +|||||+|.+.++|+.||.. ++..|.|+.|.|.++..
T Consensus        16 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~~a~~   94 (105)
T 2dh8_A           16 IGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPKPCTP   94 (105)
T ss_dssp             SSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCCCSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEEccC
Confidence            5799999999999999999999999999999984        47999999999999999977 99999999999999886


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus        95 ~~~   97 (105)
T 2dh8_A           95 RGM   97 (105)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            543

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.78  E-value=1.8e-19  Score=119.98  Aligned_cols=71  Identities=24%  Similarity=0.399  Sum_probs=65.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..+.+        .+|||||+|.++++|+.|++.||+..|.|+.|.|.++.
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a~   93 (95)
T 2ek1_A           15 PTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPS   93 (95)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEecc
Confidence            479999999999999999999999999876555        26899999999999999999999999999999999875

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

Probab=99.78  E-value=2.6e-19  Score=114.41  Aligned_cols=68  Identities=25%  Similarity=0.599  Sum_probs=64.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      |+|||+|||+.+|+++|+++|+.||+|..|.+.        +|||||+|.+.++|+.|+..++ ..++|+.|.|.++
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEec
Confidence            689999999999999999999999999999883        6899999999999999999999 9999999999986

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.78  E-value=9.8e-19  Score=114.41  Aligned_cols=69  Identities=26%  Similarity=0.622  Sum_probs=64.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|+.|+ .+++..|+|+.|.|+++
T Consensus        11 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~~~~~~~~g~~i~v~~A   87 (87)
T 3s7r_A           11 AGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVL-DQKEHRLDGRVIDPKKA   87 (87)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHH-HSSCEEETTEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHH-HhCCCEECCEEEEEEeC
Confidence            5799999999999999999999999999999983        689999999999999999 56888999999999875

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X

Probab=99.78  E-value=8.6e-19  Score=127.55  Aligned_cols=75  Identities=25%  Similarity=0.496  Sum_probs=70.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||+|..|.|.        +|||||+|.+.++|+.||+.||+..|.|+.|.|.++..
T Consensus        39 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  118 (156)
T 1h2v_Z           39 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAG  118 (156)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEESC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            5899999999999999999999999999999983        58999999999999999999999999999999999987


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus       119 ~~~  121 (156)
T 1h2v_Z          119 FKE  121 (156)
T ss_dssp             CCT
T ss_pred             CCC
Confidence            544

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

Probab=99.78  E-value=6.2e-19  Score=118.71  Aligned_cols=74  Identities=20%  Similarity=0.401  Sum_probs=66.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe----eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i----~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|..||.|.-+..    .+|||||+|.+.++|+.|+..||+..|.|+.|.|.++....
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~   92 (101)
T 2fc9_A           15 SKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGPRG   92 (101)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHCSSCSEEECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEECSSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEcCCCC
Confidence            589999999999999999999999998843332    37999999999999999999999999999999999998753

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

Probab=99.78  E-value=2.6e-19  Score=113.73  Aligned_cols=67  Identities=25%  Similarity=0.550  Sum_probs=63.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      +|||+|||+.+|+++|+++|+.||+|..|.+.        +|||||+|.++++|+.|++ |++..|+|+.|.|.++
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEeC
Confidence            69999999999999999999999999999983        5899999999999999995 9999999999999874

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

Probab=99.78  E-value=1.8e-18  Score=115.51  Aligned_cols=73  Identities=29%  Similarity=0.444  Sum_probs=68.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      ..++|||+||  .+|+++|+++|+.||+|..|.|.  +|||||+|.+.++|+.||..|||..|.|+.|.|.++....
T Consensus        14 ~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~~~~   88 (97)
T 1x5p_A           14 KGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQP   88 (97)
T ss_dssp             CCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCSSCC
T ss_pred             CCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEecCCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCCCC
Confidence            3589999996  99999999999999999999985  8999999999999999999999999999999999997653

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.78  E-value=1.5e-18  Score=119.73  Aligned_cols=72  Identities=24%  Similarity=0.335  Sum_probs=66.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcE-EEEEeCChhhHHHHHHHhcCcccCC--ceEEEEEccCCC
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGF-GFVEFEDYRDADDAVYELNGKSLLG--ERVTVEIAKGID   76 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~-afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~~~~~   76 (262)
                      .|||+||++.+|+++|.++|+.||.|..|.|.  .|+ |||+|.+.++|..|++.|||..|.|  +.|.|.+++...
T Consensus        27 ~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak~~~  103 (124)
T 2e5i_A           27 LLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKRNGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARPTR  103 (124)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEESSSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCSCSC
T ss_pred             EEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEecCCc
Confidence            47899999999999999999999999999884  485 9999999999999999999999988  689999998654

>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=99.78  E-value=5.7e-19  Score=115.70  Aligned_cols=73  Identities=15%  Similarity=0.288  Sum_probs=68.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ..++|||+|||+.+|+++|+++|+.| .|..|.+  .+|||||+|.++++|+.|++.|||..|.|+.|.|.++...
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~   78 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTD   78 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEeCCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcCCC
Confidence            35899999999999999999999999 9999887  4899999999999999999999999999999999998653

>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=99.78  E-value=1.3e-18  Score=116.37  Aligned_cols=75  Identities=23%  Similarity=0.430  Sum_probs=69.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|+++|++||.|..+.+.     +.++|+|||+|.+.++|.+|++.|||..+.|+.|.|.+++|
T Consensus        19 gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~AkP   98 (99)
T 4fxv_A           19 GTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYARP   98 (99)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCB
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            4589999999999999999999999999999876     44678999999999999999999999999999999999875

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.77  E-value=1.3e-18  Score=117.60  Aligned_cols=73  Identities=19%  Similarity=0.374  Sum_probs=66.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeE-EEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRD-VIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~-v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|..||.|.. |.|       .+|||||+|.++++|+.||.. ++..|+|+.|.|.++..
T Consensus        15 ~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v~~~~~   93 (104)
T 1wg5_A           15 DGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK-HKERIGHRYIEIFKSSR   93 (104)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEEEEECT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CcchhCCcEEEEEECCH
Confidence            579999999999999999999999999987 777       379999999999999999966 99999999999998875


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus        94 ~~   95 (104)
T 1wg5_A           94 AE   95 (104)
T ss_dssp             TT
T ss_pred             HH
Confidence            43

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A

Probab=99.77  E-value=8.7e-19  Score=128.63  Aligned_cols=137  Identities=18%  Similarity=0.188  Sum_probs=72.6

Q ss_pred             EEeCChhhHHHHHHHhcCcccC--CceEEEEEccCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEc
Q psy10320         42 VEFEDYRDADDAVYELNGKSLL--GERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVE  119 (262)
Q Consensus        42 V~f~~~~~a~~a~~~l~~~~~~--g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~  119 (262)
                      .+|++.++|+.|+..|++....  |+.+.+.+.........  .         +.... .............+.++|||+
T Consensus        11 ee~e~~~d~e~~~~~~~~~~~~~kgr~~~~~~~~~~~~~~~--~---------~~~~s-~~~~~~~~~~~~~~~~~l~V~   78 (165)
T 1rk8_A           11 EEFEVDEDGDQGIVRLKEKAKHRKGRGFGSDSNTREAIHSY--E---------RVRNE-DDDELEPGPQRSVEGWILFVT   78 (165)
T ss_dssp             -------------------------------------------------------------------CCCCC-CEEEEEE
T ss_pred             hhhhccccccccchhhccccccccCCCCCCCccccccccCc--c---------ccccC-CCCCCCCCCCCCCCCCEEEEe
Confidence            7899999999999999986554  55544443221100000  0         00000 000000011122346799999


Q ss_pred             CCCCCCCHHHHHHHhhcCCceEEEecccC-----CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        120 NLSSRVSWQDLKDFMRQVGEVCYADAHKR-----HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       120 nl~~~~~~~~l~~~f~~~g~i~~~~~~~~-----~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      |||..+++++|.++|.+||.|..+.+...     .+|||||+|.+.++|..||..|||..|.|+.|.|.++.++..
T Consensus        79 nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~~  154 (165)
T 1rk8_A           79 SIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFVKGP  154 (165)
T ss_dssp             SCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEECC-
T ss_pred             CCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEecCCCC
Confidence            99999999999999999999999988733     579999999999999999999999999999999999877644

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.77  E-value=8.2e-19  Score=121.03  Aligned_cols=75  Identities=24%  Similarity=0.349  Sum_probs=68.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCce----eEEEee----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRI----RDVILK----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v----~~v~i~----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|..||.|    ..+.+.    +|||||+|.+.++|+.|+..|||..|.|+.|.|.++..
T Consensus        25 ~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~~  104 (115)
T 2cpx_A           25 NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKN  104 (115)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEccC
Confidence            5799999999999999999999999998    455553    79999999999999999999999999999999999987


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus       105 ~~~  107 (115)
T 2cpx_A          105 KKQ  107 (115)
T ss_dssp             CSC
T ss_pred             CCC
Confidence            543

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

Probab=99.77  E-value=2.2e-19  Score=124.20  Aligned_cols=73  Identities=23%  Similarity=0.321  Sum_probs=67.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCc---eeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGR---IRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~---v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .++|||+|||+++|+++|+++|+.||.   |..|.|.       +|||||+|.+.++|++||+ ||+..|.|+.|.|.++
T Consensus        17 ~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a   95 (118)
T 2db1_A           17 GYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-KDRESMGHRYIEVFKS   95 (118)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEEEEE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCeECCeEEEEEEC
Confidence            478999999999999999999999998   8888873       7899999999999999997 9999999999999998


Q ss_pred             cCCC
Q psy10320         73 KGID   76 (262)
Q Consensus        73 ~~~~   76 (262)
                      ....
T Consensus        96 ~~~~   99 (118)
T 2db1_A           96 HRTE   99 (118)
T ss_dssp             CHHH
T ss_pred             CHHH
Confidence            7544

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.77  E-value=1.4e-19  Score=119.32  Aligned_cols=73  Identities=25%  Similarity=0.563  Sum_probs=66.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+|+++|+++|+.||+|..|.+.        +|||||+|.+.+ |..|+..|||..|+|+.|.|.++..
T Consensus         1 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~   79 (90)
T 2ki2_A            1 MRNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANP   79 (90)
T ss_dssp             CEEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC--
T ss_pred             CcEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCC
Confidence            4799999999999999999999999999999983        689999999999 9999999999999999999999986


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus        80 ~~   81 (90)
T 2ki2_A           80 KK   81 (90)
T ss_dssp             --
T ss_pred             CC
Confidence            43

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.77  E-value=1.6e-18  Score=118.09  Aligned_cols=73  Identities=25%  Similarity=0.547  Sum_probs=66.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+..+ +..|+|+.|.|.++..
T Consensus        25 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g~~l~V~~a~~  103 (109)
T 2rs2_A           25 GCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELDSKTIDPKVAFP  103 (109)
T ss_dssp             -CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEETTEEEEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCCCEEEEEEEccC
Confidence            5799999999999999999999999999999983        689999999999999999765 5999999999999986


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus       104 ~~  105 (109)
T 2rs2_A          104 RR  105 (109)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.77  E-value=1.5e-19  Score=117.75  Aligned_cols=71  Identities=28%  Similarity=0.479  Sum_probs=65.7

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .+++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|++.|||..|.|+.|.+.+.
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~   82 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGP   82 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCC
Confidence            36899999999999999999999999999999983        689999999999999999999999999998877654

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

Probab=99.77  E-value=5.5e-19  Score=125.05  Aligned_cols=74  Identities=34%  Similarity=0.583  Sum_probs=69.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+..|||..|.|+.|.|.++..
T Consensus        47 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~~  126 (135)
T 2lea_A           47 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARY  126 (135)
T ss_dssp             CCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            4799999999999999999999999999999983        67999999999999999999999999999999999986


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus       127 ~~  128 (135)
T 2lea_A          127 GR  128 (135)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>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=99.77  E-value=1.3e-18  Score=125.84  Aligned_cols=73  Identities=48%  Similarity=0.747  Sum_probs=69.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.   +|||||+|.+.++|..|+..|||..|.|+.|.|.++.+.
T Consensus        73 ~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~  148 (150)
T 2i2y_A           73 DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNGE  148 (150)
T ss_dssp             SCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSSSCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcCCC
Confidence            5799999999999999999999999999999994   899999999999999999999999999999999998764

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.77  E-value=5.3e-19  Score=118.72  Aligned_cols=71  Identities=37%  Similarity=0.669  Sum_probs=66.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|+.|| |..|.|.         +|||||+|.+.++|+.|+ .|+|..|.|+.|.|.++.
T Consensus        19 ~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~~a~   96 (100)
T 2j76_E           19 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVDVAD   96 (100)
T ss_dssp             -CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCEECC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEEecc
Confidence            58999999999999999999999999 9999983         689999999999999999 999999999999999987


Q ss_pred             CC
Q psy10320         74 GI   75 (262)
Q Consensus        74 ~~   75 (262)
                      ..
T Consensus        97 ~~   98 (100)
T 2j76_E           97 QA   98 (100)
T ss_dssp             CS
T ss_pred             CC
Confidence            54

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

Probab=99.77  E-value=9.4e-19  Score=116.70  Aligned_cols=74  Identities=20%  Similarity=0.341  Sum_probs=68.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe---eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i---~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..+..   .+|||||+|.+.++|+.|+..|+|..|.|+.|.|.++....
T Consensus        16 ~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~   92 (96)
T 1fjc_A           16 ARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKG   92 (96)
T ss_dssp             GGEEEEESCCSSCCHHHHHHHHCSEEEECCEEETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhCCcEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcCCCC
Confidence            579999999999999999999999999888732   47999999999999999999999999999999999997653

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

Probab=99.77  E-value=1.8e-18  Score=114.13  Aligned_cols=71  Identities=21%  Similarity=0.359  Sum_probs=66.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.| .|..|.|.       +|||||+|.+.++|+.|+. ||+..|.|+.|.|.++...
T Consensus        10 ~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a~~~   87 (91)
T 2dgw_A           10 CHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFREKSG   87 (91)
T ss_dssp             CCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEESSC
T ss_pred             ccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEECCcC
Confidence            5799999999999999999999999 89999883       6899999999999999998 9999999999999999765

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.77  E-value=1.8e-18  Score=119.44  Aligned_cols=74  Identities=28%  Similarity=0.553  Sum_probs=68.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|..||.|..|.|.        +|||||+|.+.++|+.||.. ++..|+|+.|.|.++..
T Consensus        27 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a~~  105 (116)
T 1x4b_A           27 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRAVA  105 (116)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECCSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEECCC
Confidence            4799999999999999999999999999999983        58999999999999999976 99999999999999986


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus       106 ~~~  108 (116)
T 1x4b_A          106 REE  108 (116)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            543

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

Probab=99.77  E-value=1.7e-18  Score=114.95  Aligned_cols=72  Identities=25%  Similarity=0.488  Sum_probs=64.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeC--c-EEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--G-FGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~--g-~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|..||.|..|.+.+  + ||||+|.+.++|+.|+. |||..|+|+.|.|.++...
T Consensus         8 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~~~~~~g~~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~a~~~   82 (94)
T 2e5g_A            8 LRSVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRPREQK   82 (94)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHGGGTSCEEEEEECSSSCCEEEEEESSHHHHHHHHT-CSCCEETTEECCCBCSCCS
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEcCCCCcEEEEEECCHHHHHHHHh-cCCeEECCEEEEEEECCcC
Confidence            46999999999999999999999999999984421  2 99999999999999998 9999999999999977654

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A

Probab=99.77  E-value=1.6e-18  Score=127.25  Aligned_cols=75  Identities=23%  Similarity=0.445  Sum_probs=69.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+|+++|+++|..||.|..|.|.        +|||||+|.+.++|+.||..|||..|.|+.|.|.++..
T Consensus        72 ~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  151 (165)
T 1rk8_A           72 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFV  151 (165)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEecC
Confidence            4689999999999999999999999999999984        68999999999999999999999999999999999986


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus       152 ~~~  154 (165)
T 1rk8_A          152 KGP  154 (165)
T ss_dssp             CC-
T ss_pred             CCC
Confidence            543

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

Probab=99.77  E-value=1.5e-18  Score=115.66  Aligned_cols=73  Identities=19%  Similarity=0.215  Sum_probs=67.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEE-Eee----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV-ILK----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v-~i~----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|..||.|..| .|.    .+.|||+|.+.++|+.|+..|||..|.|+.|.|.++.+.
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~   92 (96)
T 2e44_A           15 IRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPDE   92 (96)
T ss_dssp             CCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSSEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECCCC
T ss_pred             CCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCcc
Confidence            5799999999999999999999999999999 463    456999999999999999999999999999999999865

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

Probab=99.77  E-value=1.3e-18  Score=121.71  Aligned_cols=72  Identities=25%  Similarity=0.532  Sum_probs=67.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+ .|||..|.|+.|.|.++..
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~  114 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPKRT  114 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEESSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCC
Confidence            4799999999999999999999999999999983        689999999999999999 8999999999999999875


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus       115 ~  115 (124)
T 2jwn_A          115 N  115 (124)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=4e-19  Score=122.22  Aligned_cols=74  Identities=22%  Similarity=0.280  Sum_probs=67.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCce-eEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRI-RDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v-~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.| ..|.|       .+|||||+|.+.++|+.||+. |+..|.|+.|.|.++..
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~a~~   93 (114)
T 2cpy_A           15 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL-HRKKLNGREAFVHVVTL   93 (114)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEEECH
T ss_pred             ccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEECCH
Confidence            5799999999999999999999999999 77877       379999999999999999965 99999999999999976


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus        94 ~~~   96 (114)
T 2cpy_A           94 EDM   96 (114)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.76  E-value=4.2e-18  Score=119.39  Aligned_cols=81  Identities=20%  Similarity=0.256  Sum_probs=73.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|.++|..||.|..+.+.     +..+++|||+|.+.++|.+|++.|||..|.|+.|.|.++
T Consensus        20 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   99 (126)
T 3ex7_B           20 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWC   99 (126)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEe
Confidence            346799999999999999999999999999999886     334899999999999999999999999999999999999


Q ss_pred             CCCCCC
Q psy10320        186 KPRGGG  191 (262)
Q Consensus       186 ~~~~~~  191 (262)
                      .++...
T Consensus       100 ~~~~~~  105 (126)
T 3ex7_B          100 FVRGPP  105 (126)
T ss_dssp             EESSSC
T ss_pred             cCCCCC
Confidence            776544

>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=99.76  E-value=2.6e-18  Score=125.33  Aligned_cols=74  Identities=34%  Similarity=0.583  Sum_probs=69.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+..|||..|.|+.|.|.++..
T Consensus        70 ~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  149 (158)
T 2kn4_A           70 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMARY  149 (158)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            5799999999999999999999999999999983        68999999999999999999999999999999999986


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus       150 ~~  151 (158)
T 2kn4_A          150 GR  151 (158)
T ss_dssp             SS
T ss_pred             CC
Confidence            53

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.76  E-value=1.2e-18  Score=122.83  Aligned_cols=74  Identities=20%  Similarity=0.352  Sum_probs=68.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeE--EEe--------eCcEEEEEeCChhhHHHHHHHhcCc----ccCCceEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRD--VIL--------KNGFGFVEFEDYRDADDAVYELNGK----SLLGERVT   68 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~--v~i--------~~g~afV~f~~~~~a~~a~~~l~~~----~~~g~~l~   68 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..  |.|        .+|||||+|.+. +|..|+..|||.    .|+|+.|.
T Consensus        23 ~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr~l~  101 (131)
T 2m2b_A           23 NDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGKTIN  101 (131)
T ss_dssp             CCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGCCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCEEEE
Confidence            579999999999999999999999999966  777        279999999999 999999999999    99999999


Q ss_pred             EEEccCCCc
Q psy10320         69 VEIAKGIDR   77 (262)
Q Consensus        69 v~~~~~~~~   77 (262)
                      |.++.....
T Consensus       102 V~~a~~~~~  110 (131)
T 2m2b_A          102 VEFAKGSKR  110 (131)
T ss_dssp             CEECCCSCC
T ss_pred             EEECCCCCC
Confidence            999987543

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.1e-18  Score=117.35  Aligned_cols=73  Identities=25%  Similarity=0.332  Sum_probs=65.7

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..++|||+|||+.+|+++|+++|+.||.| .|.|.       +|||||+|.++++|++|| .+|+..|.|+.|.|.++..
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~G~~-~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~~~~   91 (102)
T 1wez_A           14 TGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAM-AKDKANMQHRYVELFLNST   91 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHH-TTSSCCSSSSCCEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCce-EEEEEECCCCCEeeEEEEEECCHHHHHHHH-HhCCCeECCcEEEEEECCC
Confidence            35799999999999999999999999955 88773       789999999999999999 6899999999999998875


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus        92 ~~   93 (102)
T 1wez_A           92 AG   93 (102)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

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

Probab=99.76  E-value=4.8e-18  Score=114.76  Aligned_cols=73  Identities=23%  Similarity=0.515  Sum_probs=66.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|..||.|..|.|.        +|||||+|.+.++|+.||.  ++..|+|+.|.|.++..
T Consensus        15 ~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g~~l~v~~a~~   92 (103)
T 2cqg_A           15 TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS--QRHMIDGRWCDCKLPNS   92 (103)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH--SCEEETTEEEEEECCCT
T ss_pred             CCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH--cCCeeCCeEEEEEecCC
Confidence            5799999999999999999999999999999983        5799999999999999997  47799999999999987


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus        93 ~~~   95 (103)
T 2cqg_A           93 KQS   95 (103)
T ss_dssp             TCC
T ss_pred             CCc
Confidence            543

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=2.8e-18  Score=118.09  Aligned_cols=72  Identities=25%  Similarity=0.499  Sum_probs=67.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCccc--------CCceE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSL--------LGERV   67 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~--------~g~~l   67 (262)
                      .++|||+|||+.+|+++|+++|..||.|..|.|.       +|||||+|.+.++|+.|+..|||..|        .++.|
T Consensus        25 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~~l  104 (114)
T 1x5o_A           25 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEPL  104 (114)
T ss_dssp             TTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSCB
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCCce
Confidence            5899999999999999999999999999999983       58999999999999999999999999        57889


Q ss_pred             EEEEccC
Q psy10320         68 TVEIAKG   74 (262)
Q Consensus        68 ~v~~~~~   74 (262)
                      .|.++.+
T Consensus       105 ~v~~a~p  111 (114)
T 1x5o_A          105 LCKFSGP  111 (114)
T ss_dssp             EEEECCC
T ss_pred             eEEccCC
Confidence            9998874

>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=99.76  E-value=4.3e-17  Score=111.20  Aligned_cols=81  Identities=25%  Similarity=0.364  Sum_probs=73.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc--cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH--KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ....++|||+|||..+++++|+++|++||.|..+.+.  ...+++|||+|.+.++|..|++.||+..+.|+.|.|.++.+
T Consensus        19 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   98 (109)
T 1x4a_A           19 GNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRS   98 (109)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEccc
Confidence            3446799999999999999999999999999998886  34578999999999999999999999999999999999877


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      ...
T Consensus        99 ~~~  101 (109)
T 1x4a_A           99 GRG  101 (109)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            644

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

Probab=99.75  E-value=3.6e-18  Score=115.21  Aligned_cols=74  Identities=30%  Similarity=0.447  Sum_probs=66.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-----eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-----KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-----~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.|+.|.-+..     .+|||||+|.+.++|+.||..||+..|.|+.|.|.++....
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~   93 (102)
T 2fc8_A           15 SKTLFVKGLSEDTTEETLKESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAKPKG   93 (102)
T ss_dssp             CSSEEEECCCTTCCHHHHHHTSTTCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCCC
T ss_pred             CCEEEEeCCCCccCHHHHHHHhcCCeEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCCC
Confidence            589999999999999999999999976655543     26899999999999999999999999999999999998653

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

Probab=99.75  E-value=1.9e-17  Score=114.06  Aligned_cols=78  Identities=19%  Similarity=0.295  Sum_probs=71.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ..+|||+|||..+++++|+++|++||.|..+.+.    +..+|+|||+|.+.++|.+|++.|+|..+.|+.|.|..+.+.
T Consensus         7 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   86 (116)
T 2fy1_A            7 PGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAKKP   86 (116)
T ss_dssp             CCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECCCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            5699999999999999999999999999988886    345799999999999999999999999999999999999865


Q ss_pred             CC
Q psy10320        189 GG  190 (262)
Q Consensus       189 ~~  190 (262)
                      ..
T Consensus        87 ~~   88 (116)
T 2fy1_A           87 SF   88 (116)
T ss_dssp             SC
T ss_pred             CC
Confidence            43

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

Probab=99.75  E-value=2.9e-18  Score=122.54  Aligned_cols=70  Identities=34%  Similarity=0.597  Sum_probs=66.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|++.|||..|.|+.|.|.++
T Consensus        63 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~A  140 (140)
T 2ku7_A           63 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA  140 (140)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEEC-
T ss_pred             CcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            5799999999999999999999999999999983        789999999999999999999999999999999875

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.75  E-value=1.9e-18  Score=133.08  Aligned_cols=73  Identities=22%  Similarity=0.339  Sum_probs=68.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCC--ceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYG--RIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G--~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|+.||  .|..|.|.        +|||||+|.+.++|++||+.||+..|.|+.|.|.++
T Consensus        68 ~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~a  147 (229)
T 3q2s_C           68 RIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPV  147 (229)
T ss_dssp             -CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEEC
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEEC
Confidence            47899999999999999999999999  99999983        689999999999999999999999999999999998


Q ss_pred             cCC
Q psy10320         73 KGI   75 (262)
Q Consensus        73 ~~~   75 (262)
                      ...
T Consensus       148 ~~~  150 (229)
T 3q2s_C          148 NKQ  150 (229)
T ss_dssp             CHH
T ss_pred             CCC
Confidence            754

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

Probab=99.75  E-value=5.3e-19  Score=119.03  Aligned_cols=73  Identities=26%  Similarity=0.453  Sum_probs=65.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..+.+       ++|||||+|.+.++|+.||+ |||..|.|+.|.|.++...
T Consensus        17 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a~~~   95 (101)
T 1fj7_A           17 PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPKGR   95 (101)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECCSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEcCCC
Confidence            579999999999999999999999998766222       37999999999999999997 9999999999999999764


Q ss_pred             C
Q psy10320         76 D   76 (262)
Q Consensus        76 ~   76 (262)
                      .
T Consensus        96 ~   96 (101)
T 1fj7_A           96 D   96 (101)
T ss_dssp             C
T ss_pred             C
Confidence            3

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus}

Probab=99.75  E-value=5.5e-18  Score=110.98  Aligned_cols=70  Identities=30%  Similarity=0.544  Sum_probs=60.3

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcc--cCCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKS--LLGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~--~~g~~l~v~~~~~~   75 (262)
                      ..++|||+|||+++|+++|+++|++||.|.+|.|.   +|||||+|.+.++|+.    |++..  +.|+.|.|.++.++
T Consensus        10 ~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~srGfaFV~F~~~~~A~~----~~~~~~~~~g~~v~v~~a~~k   84 (89)
T 3d2w_A           10 HGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQS----LCGEDLIIKGISVHISNAEPK   84 (89)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSSCCSEEEEEESCHHHHHH----HTTCEEEETTEEEEEEECC--
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeCCCCEEEEEECCHHHHHH----HcCCCcccCCEEEEEEEcCCC
Confidence            36899999999999999999999999999999995   7999999999999983    45654  56999999998764

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

Probab=99.75  E-value=3.5e-18  Score=115.79  Aligned_cols=71  Identities=30%  Similarity=0.438  Sum_probs=65.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.| .|..|.|.       +|||||+|.++++|++|| .||+..|+|+.|.|..+...
T Consensus        16 ~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~a~~~   93 (109)
T 2dnn_A           16 DLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPATER   93 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEECCHH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCcc
Confidence            3689999999999999999999999 89999883       799999999999999999 89999999999999888654

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=99.75  E-value=1.2e-18  Score=110.59  Aligned_cols=67  Identities=19%  Similarity=0.491  Sum_probs=62.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      ||||+|||+.+|+++|+++|+.||+|..|.+.        +|||||+|.++++|+.|++ +++..|.|+.|.|.++
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~-~~~~~~~g~~l~v~~a   75 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHT-TSSCCBTTBCCCEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHH-hCCCeECCEEEEEEEC
Confidence            69999999999999999999999999999883        6899999999999999995 5899999999999874

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=99.75  E-value=1.3e-18  Score=122.53  Aligned_cols=72  Identities=22%  Similarity=0.281  Sum_probs=66.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCc---eeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGR---IRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~---v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .++|||+|||+++|+++|+++|+.||.   |..|.|.       +|||||+|.+.++|++||+ ||+..|.|+.|.|.++
T Consensus        44 ~~~lfVgnLp~~~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           44 GFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMGHRYIEVFKS  122 (136)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESSSSEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEECCEEEEEEEC
Confidence            479999999999999999999999999   7888873       6899999999999999997 9999999999999998


Q ss_pred             cCC
Q psy10320         73 KGI   75 (262)
Q Consensus        73 ~~~   75 (262)
                      ...
T Consensus       123 ~~~  125 (136)
T 2hgl_A          123 HRT  125 (136)
T ss_dssp             CHH
T ss_pred             ChH
Confidence            654

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=9.6e-19  Score=122.23  Aligned_cols=72  Identities=25%  Similarity=0.424  Sum_probs=65.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeE-EEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRD-VIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~-v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|..||.|.. +.+       .+|||||+|.+.++|+.||. ||+..|+|+.|.|.++..
T Consensus        25 ~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a~~  103 (124)
T 1wel_A           25 GFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPITK  103 (124)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEECH
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEECCH
Confidence            479999999999999999999999999876 333       37999999999999999997 999999999999999875


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus       104 ~  104 (124)
T 1wel_A          104 K  104 (124)
T ss_dssp             H
T ss_pred             H
Confidence            4

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

Probab=99.75  E-value=3.6e-18  Score=126.34  Aligned_cols=73  Identities=23%  Similarity=0.470  Sum_probs=69.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..|.|.       +|||||+|.+.++|+.|++.|||..|.|+.|.|+++...
T Consensus        88 ~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a~~~  167 (177)
T 2f3j_A           88 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQ  167 (177)
T ss_dssp             CEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEESSG
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEecCC
Confidence            5899999999999999999999999999999993       699999999999999999999999999999999999764

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.75  E-value=5.1e-18  Score=110.97  Aligned_cols=68  Identities=22%  Similarity=0.613  Sum_probs=64.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcC----C-------ceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGY----G-------RIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTV   69 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~----G-------~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v   69 (262)
                      .++|||+|||+.+|+++|+++|+.|    |       .|..+.+.  +|||||+|.++++|+.|+ .|||..|.|+.|.|
T Consensus         6 ~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~kg~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V   84 (87)
T 2hzc_A            6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKI   84 (87)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSSSSEEEEEESSHHHHHHHG-GGTTCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCCCcEEEEEcCCHHHHHHHH-hcCCCEECCeEEEE
Confidence            5799999999999999999999999    8       89999985  899999999999999999 99999999999998


Q ss_pred             EE
Q psy10320         70 EI   71 (262)
Q Consensus        70 ~~   71 (262)
                      +.
T Consensus        85 ~r   86 (87)
T 2hzc_A           85 RR   86 (87)
T ss_dssp             EC
T ss_pred             eC
Confidence            73

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

Probab=99.74  E-value=3.7e-17  Score=110.37  Aligned_cols=82  Identities=27%  Similarity=0.312  Sum_probs=73.8

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ..+..+|||+|||..+++++|.++|++||.|..+.+.     +..+++|||+|.+.++|.+|+..|||..+.|+.|.|..
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   89 (103)
T 2dnm_A           10 VDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQV   89 (103)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            3446799999999999999999999999999999887     34579999999999999999999999999999999999


Q ss_pred             cCCCCCC
Q psy10320        185 DKPRGGG  191 (262)
Q Consensus       185 ~~~~~~~  191 (262)
                      +.+....
T Consensus        90 a~~~~~~   96 (103)
T 2dnm_A           90 ARYGRRD   96 (103)
T ss_dssp             CSSCCSC
T ss_pred             CCcCCCC
Confidence            9865443

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

Probab=99.74  E-value=6.1e-17  Score=108.47  Aligned_cols=80  Identities=23%  Similarity=0.303  Sum_probs=73.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ...+|||+|||..+++++|+++|+.||.|..+.+.     +..+++|||+|.+.++|..|+..|+|..+.|+.|.|.++.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   86 (99)
T 1whw_A            7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            36799999999999999999999999999999886     4467999999999999999999999999999999999998


Q ss_pred             CCCCC
Q psy10320        187 PRGGG  191 (262)
Q Consensus       187 ~~~~~  191 (262)
                      ++...
T Consensus        87 ~~~~~   91 (99)
T 1whw_A           87 IKKEA   91 (99)
T ss_dssp             CCSTT
T ss_pred             CCccc
Confidence            76543

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens}

Probab=99.74  E-value=3.4e-18  Score=122.50  Aligned_cols=74  Identities=26%  Similarity=0.456  Sum_probs=67.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeE--------EEe-----eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRD--------VIL-----KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTV   69 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~--------v~i-----~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v   69 (262)
                      +++|||+|||+.+|+++|+++|..||.|..        |.+     .+|||||+|.+.++|..|+..|||..|.|+.|.|
T Consensus        45 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V  124 (143)
T 3egn_A           45 NCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKPMVV  124 (143)
T ss_dssp             CSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcEEEE
Confidence            579999999999999999999999998865        433     3789999999999999999999999999999999


Q ss_pred             EEccCCC
Q psy10320         70 EIAKGID   76 (262)
Q Consensus        70 ~~~~~~~   76 (262)
                      .++....
T Consensus       125 ~~a~~~~  131 (143)
T 3egn_A          125 QFARSAR  131 (143)
T ss_dssp             EECCCSC
T ss_pred             EECCCCC
Confidence            9997643

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

Probab=99.74  E-value=5.3e-17  Score=107.93  Aligned_cols=80  Identities=25%  Similarity=0.356  Sum_probs=73.1

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|+++|++||.|..+.+..     ..+++|||+|.+.++|..|+..|||..+.|+.|.|.++.+
T Consensus         5 ~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   84 (95)
T 2dnz_A            5 SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVTE   84 (95)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEESSC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccc
Confidence            56999999999999999999999999999998863     3578999999999999999999999999999999999987


Q ss_pred             CCCCC
Q psy10320        188 RGGGR  192 (262)
Q Consensus       188 ~~~~~  192 (262)
                      +....
T Consensus        85 ~~~~~   89 (95)
T 2dnz_A           85 RLDGG   89 (95)
T ss_dssp             CCCCC
T ss_pred             ccCCC
Confidence            75543

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A

Probab=99.74  E-value=4.1e-17  Score=112.43  Aligned_cols=81  Identities=15%  Similarity=0.286  Sum_probs=72.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|+++|+.||.|..+.+..     ..+++|||+|.+.++|.+|++.|||..|.|+.|.|.++
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a  102 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLK  102 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            3457999999999999999999999999999888763     34689999999999999999999999999999999999


Q ss_pred             CCCCCC
Q psy10320        186 KPRGGG  191 (262)
Q Consensus       186 ~~~~~~  191 (262)
                      .++...
T Consensus       103 ~~~~~~  108 (115)
T 2cpz_A          103 RSKNDS  108 (115)
T ss_dssp             CCSCCC
T ss_pred             CCCCcC
Confidence            876543

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

Probab=99.73  E-value=1.1e-17  Score=113.61  Aligned_cols=78  Identities=31%  Similarity=0.543  Sum_probs=71.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCC-ceEEEecc-cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAH-KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g-~i~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ...++|||+|||+.+++++|+++|++|| .|..+.+. ..++|+|||+|.+.++|.+|++.|||..+.|+.|.|..+...
T Consensus        26 ~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a~~~  105 (111)
T 2jvr_A           26 AKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDDNP  105 (111)
T ss_dssp             CCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSCSSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEESCC-
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcCCCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCCC
Confidence            3467999999999999999999999999 89999885 567899999999999999999999999999999999998643

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=9.7e-17  Score=108.70  Aligned_cols=81  Identities=28%  Similarity=0.371  Sum_probs=73.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+..     ..+|+|||+|.+.++|..|+..|+|..+.|+.|.|.++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   92 (105)
T 1x5u_A           13 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKA   92 (105)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEC
Confidence            3467999999999999999999999999999998863     45789999999999999999999999999999999999


Q ss_pred             CCCCCC
Q psy10320        186 KPRGGG  191 (262)
Q Consensus       186 ~~~~~~  191 (262)
                      .+....
T Consensus        93 ~~~~~~   98 (105)
T 1x5u_A           93 SAHNKN   98 (105)
T ss_dssp             TTTSCC
T ss_pred             CCCCcC
Confidence            876543

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=99.73  E-value=2e-18  Score=117.36  Aligned_cols=72  Identities=17%  Similarity=0.154  Sum_probs=66.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCc---eeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGR---IRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~---v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|..||.   |..|.|.       +|||||+|.+.++|+.||. |++..|+|+.|.|.++
T Consensus        11 ~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~a   89 (107)
T 2lmi_A           11 VFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-KHRMYMGQRYVEVYEI   89 (107)
T ss_dssp             CCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCCEEC
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCcceeCCeEEEEEEC
Confidence            579999999999999999999999998   8888883       7899999999999999997 9999999999999998


Q ss_pred             cCC
Q psy10320         73 KGI   75 (262)
Q Consensus        73 ~~~   75 (262)
                      ...
T Consensus        90 ~~~   92 (107)
T 2lmi_A           90 NNE   92 (107)
T ss_dssp             CHH
T ss_pred             CHH
Confidence            754

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

Probab=99.73  E-value=5.9e-17  Score=106.52  Aligned_cols=77  Identities=23%  Similarity=0.383  Sum_probs=71.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGG  191 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~~  191 (262)
                      +.++|||+|||..+++++|+++|++||.|..+.+.   +++|||+|.+.++|..|+..|+|..+.|+.|.|.++.++...
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~---~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~~   83 (90)
T 2dnq_A            7 GMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII---KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKNKSKA   83 (90)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE---TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSSCCCCC
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE---CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECCCCCCC
Confidence            46799999999999999999999999999999987   789999999999999999999999999999999999876543

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

Probab=99.73  E-value=2.4e-17  Score=109.95  Aligned_cols=77  Identities=13%  Similarity=0.164  Sum_probs=70.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCC--cccCCceEEEeecCCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDN--AELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g--~~~~g~~~~v~~~~~~~~  190 (262)
                      ..+|||+|||+.+++++|+++|++||.|..+.+... +|+|||+|++.++|..|++.|++  ..+.|+.|.|.++.++.-
T Consensus        16 ~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~-kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A~~~~~   94 (105)
T 1sjq_A           16 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG-KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKEL   94 (105)
T ss_dssp             CCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT-TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCCSSSSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC-CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcCCCCC
Confidence            569999999999999999999999999999998864 79999999999999999998864  789999999999876543

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

Probab=99.73  E-value=9.7e-17  Score=107.48  Aligned_cols=80  Identities=16%  Similarity=0.425  Sum_probs=72.6

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .+.++|||+|||..+++++|+++|++||.|..+.+.     +..+++|||+|.+.++|.+|++ |++..+.|+.|.|.++
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~~a   86 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKRA   86 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEECCeEEEEEEC
Confidence            346799999999999999999999999999999886     3468999999999999999998 9999999999999999


Q ss_pred             CCCCCC
Q psy10320        186 KPRGGG  191 (262)
Q Consensus       186 ~~~~~~  191 (262)
                      .++...
T Consensus        87 ~~~~~~   92 (99)
T 2dgs_A           87 EPRDSK   92 (99)
T ss_dssp             CCCCCC
T ss_pred             CCCccc
Confidence            876543

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

Probab=99.73  E-value=1.3e-16  Score=108.46  Aligned_cols=82  Identities=24%  Similarity=0.425  Sum_probs=74.1

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccC------CCceEEEEecCHHHHHHHHHHh-CCcccCCceEEE
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR------HRNEGVVEFESSSDMKKALDKL-DNAELNGRRIRL  182 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~------~~~~~~v~f~~~~~a~~a~~~l-~g~~~~g~~~~v  182 (262)
                      .....+|||+|||..+++++|+++|..||.|..+.+...      .+++|||+|.+.++|..|+..| +|..+.|+.|.|
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v   91 (107)
T 2cph_A           12 KQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVL   91 (107)
T ss_dssp             SSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEE
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEE
Confidence            344679999999999999999999999999999998644      4899999999999999999999 999999999999


Q ss_pred             eecCCCCCC
Q psy10320        183 IEDKPRGGG  191 (262)
Q Consensus       183 ~~~~~~~~~  191 (262)
                      .++.+....
T Consensus        92 ~~a~~~~~~  100 (107)
T 2cph_A           92 EWADSEVTV  100 (107)
T ss_dssp             EECCCCCCC
T ss_pred             EeCCCCCCC
Confidence            999876543

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

Probab=99.73  E-value=4.5e-18  Score=111.46  Aligned_cols=74  Identities=26%  Similarity=0.388  Sum_probs=63.4

Q ss_pred             CccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          1 MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         1 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      +..++|||+|||+.+|+++|+++|+.||.|..|.|.   +|||||+|.+.++|++|+..  ...+.|..|.|.++.+..
T Consensus         3 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~~~~~--~~~~~g~~l~v~~a~~~~   79 (88)
T 1wf0_A            3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCGE--DLIIKGISVHISNAEPKH   79 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSCCSCCEEECSCHHHHHHTTTC--EEEETTEEEEEECCCCCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecCCCCEEEEEECCHHHHHHHhcC--CceeCCEEEEEEecCCCC
Confidence            357899999999999999999999999999999995   79999999999999765321  345689999999887653

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=1.2e-16  Score=107.83  Aligned_cols=80  Identities=19%  Similarity=0.214  Sum_probs=72.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc---CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK---RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~---~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+..   ..+++|||+|.+.++|..|+..|+|..+.|+.|.|.++.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   92 (103)
T 2cqi_A           13 GQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATT   92 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECCC
Confidence            3467999999999999999999999999999998873   3578999999999999999999999999999999999987


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      ...
T Consensus        93 ~~~   95 (103)
T 2cqi_A           93 PSS   95 (103)
T ss_dssp             TTC
T ss_pred             Ccc
Confidence            644

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

Probab=99.73  E-value=1.4e-17  Score=106.06  Aligned_cols=72  Identities=17%  Similarity=0.230  Sum_probs=68.1

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ..-|+|+||++.+++++|+++|.+||+|..+++.. ++|||||+|.+.++|..|++.||+..+.|+.|.|+.+
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~-~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A   78 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL-NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESP   78 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET-TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECC
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC-CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEEC
Confidence            34799999999999999999999999999998865 7999999999999999999999999999999999887

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

Probab=99.73  E-value=5.1e-17  Score=109.66  Aligned_cols=81  Identities=17%  Similarity=0.260  Sum_probs=73.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+..     ..+++|||+|.+.++|.+|+..|+|..+.|+.|.|.++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   92 (103)
T 2cq0_A           13 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWA   92 (103)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEC
Confidence            3467999999999999999999999999999998863     34789999999999999999999999999999999999


Q ss_pred             CCCCCC
Q psy10320        186 KPRGGG  191 (262)
Q Consensus       186 ~~~~~~  191 (262)
                      .++...
T Consensus        93 ~~~~~~   98 (103)
T 2cq0_A           93 KPSTNS   98 (103)
T ss_dssp             SCCCCS
T ss_pred             CCCCCC
Confidence            876544

>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=99.73  E-value=1.7e-16  Score=107.12  Aligned_cols=81  Identities=27%  Similarity=0.382  Sum_probs=73.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc---CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK---RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~---~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ....+|||+|||..+++++|+++|+.||.|..+.+..   ..+++|||+|.+.++|..|+..|+|..+.|+.|.|.++.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   92 (103)
T 2cq3_A           13 STPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATA   92 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccc
Confidence            3467999999999999999999999999999998873   3589999999999999999999999999999999999987


Q ss_pred             CCCC
Q psy10320        188 RGGG  191 (262)
Q Consensus       188 ~~~~  191 (262)
                      +...
T Consensus        93 ~~~~   96 (103)
T 2cq3_A           93 RVMT   96 (103)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            6543

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

Probab=99.72  E-value=3.6e-17  Score=108.01  Aligned_cols=76  Identities=16%  Similarity=0.254  Sum_probs=69.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcc--cCCceEEEeecCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAE--LNGRRIRLIEDKPR  188 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~--~~g~~~~v~~~~~~  188 (262)
                      +..+|||+|||..+++++|.++|++||.|..+.+.. .+|+|||+|++.++|..|++.|++..  +.|+.|.|.+++++
T Consensus        20 ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~-~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~S~~k   97 (100)
T 3r27_A           20 ASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP-KKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYSTSQ   97 (100)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEET-TTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEECSCS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEc-CCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEecccc
Confidence            467999999999999999999999999999998874 57999999999999999999999876  78999999998764

>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=99.72  E-value=1.4e-16  Score=107.42  Aligned_cols=77  Identities=21%  Similarity=0.364  Sum_probs=71.3

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGG  191 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~~  191 (262)
                      +..+|||+|||..+++++|+++|++||.|..+.+.   +++|||+|.+.++|.+|+..|+|..+.|+.|.|.++.+....
T Consensus        10 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~---~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~   86 (103)
T 2dgu_A           10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL---KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKPPDQK   86 (103)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC---SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCCCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE---CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcCCCccc
Confidence            35699999999999999999999999999999886   679999999999999999999999999999999999876543

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

Probab=99.72  E-value=9e-17  Score=108.45  Aligned_cols=81  Identities=17%  Similarity=0.256  Sum_probs=73.6

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc---CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK---RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~---~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ..++|||+|||..+++++|+++|+.||.|..+.+..   ..+++|||+|.+.++|..|+..|+|..+.|+.|.|.++.++
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~   93 (103)
T 2d9p_A           14 QVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQRK   93 (103)
T ss_dssp             SCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeccc
Confidence            467999999999999999999999999999998873   46789999999999999999999999999999999999876


Q ss_pred             CCCC
Q psy10320        189 GGGR  192 (262)
Q Consensus       189 ~~~~  192 (262)
                      ....
T Consensus        94 ~~~~   97 (103)
T 2d9p_A           94 EERQ   97 (103)
T ss_dssp             CCCC
T ss_pred             ccCC
Confidence            5433

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

Probab=99.72  E-value=2.8e-17  Score=111.91  Aligned_cols=76  Identities=24%  Similarity=0.239  Sum_probs=70.4

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|+++|++||.|..+.+.     +.++|+|||+|.+.++|.+|++.|||..+.|+.|.|..+..
T Consensus         6 ~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a~~   85 (110)
T 3s8s_A            6 LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDIK   85 (110)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECST
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            5699999999999999999999999999999886     45679999999999999999999999999999999999864


Q ss_pred             C
Q psy10320        188 R  188 (262)
Q Consensus       188 ~  188 (262)
                      .
T Consensus        86 ~   86 (110)
T 3s8s_A           86 G   86 (110)
T ss_dssp             T
T ss_pred             C
Confidence            3

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.72  E-value=2.3e-18  Score=121.69  Aligned_cols=73  Identities=22%  Similarity=0.292  Sum_probs=66.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+++|+++|+++|+.|| |..|.|.       +|||||+|.++++|++|| .+|+..|.|+.|.|.++...
T Consensus        46 ~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~a~~~  123 (139)
T 2hgn_A           46 GHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLNSTT  123 (139)
T ss_dssp             CCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEECCCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEECCCC
Confidence            46999999999999999999999999 6688883       789999999999999999 89999999999999988765


Q ss_pred             Cc
Q psy10320         76 DR   77 (262)
Q Consensus        76 ~~   77 (262)
                      ..
T Consensus       124 ~~  125 (139)
T 2hgn_A          124 GA  125 (139)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.72  E-value=1.4e-16  Score=106.23  Aligned_cols=78  Identities=23%  Similarity=0.251  Sum_probs=72.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccC--CceEEEeecCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELN--GRRIRLIEDKPRG  189 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~--g~~~~v~~~~~~~  189 (262)
                      +.++|||+|||..+++++|+++|++||.|..+.+... +++|||+|.+.++|.+|++.|||..+.  |+.|.|.++.++.
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~-~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a~~~~   94 (97)
T 1why_A           16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG-DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSGP   94 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS-SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC-CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEECCCCC
Confidence            3579999999999999999999999999999988754 789999999999999999999999999  9999999998764


Q ss_pred             C
Q psy10320        190 G  190 (262)
Q Consensus       190 ~  190 (262)
                      .
T Consensus        95 ~   95 (97)
T 1why_A           95 S   95 (97)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.72  E-value=9.1e-18  Score=113.16  Aligned_cols=73  Identities=23%  Similarity=0.511  Sum_probs=67.4

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.|.       +|||||+|.+.++|+.|+.  ++..++|+.|.|.++..
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v~~a~~   85 (102)
T 2xs2_A            8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--SQINFHGKKLKLGPAIR   85 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT--CCCEETTEECEEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh--CCCeECCEEEEEEECCc
Confidence            35899999999999999999999999999999984       5999999999999999996  99999999999999876


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus        86 ~~   87 (102)
T 2xs2_A           86 KQ   87 (102)
T ss_dssp             CC
T ss_pred             Cc
Confidence            53

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

Probab=99.72  E-value=2e-16  Score=108.92  Aligned_cols=81  Identities=22%  Similarity=0.337  Sum_probs=73.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|+++|..||.|..+.+..     ..+++|||+|.+.++|..|++.|+|..+.|+.|.|.++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   92 (115)
T 2dgo_A           13 SNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA   92 (115)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            3467999999999999999999999999999998863     34789999999999999999999999999999999999


Q ss_pred             CCCCCC
Q psy10320        186 KPRGGG  191 (262)
Q Consensus       186 ~~~~~~  191 (262)
                      .++...
T Consensus        93 ~~~~~~   98 (115)
T 2dgo_A           93 TRKPPA   98 (115)
T ss_dssp             SCCCCC
T ss_pred             cCCCCC
Confidence            876543

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.72  E-value=1.2e-16  Score=107.99  Aligned_cols=79  Identities=23%  Similarity=0.338  Sum_probs=71.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc------cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH------KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      .+.++|||+|||..+++++|+++|+.|| |..+.+.      +..+|+|||+|.+.++|.+|| .|++..+.|+.|.|.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~   90 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDV   90 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeCCcEEEEEE
Confidence            3467999999999999999999999999 9999887      345789999999999999999 9999999999999999


Q ss_pred             cCCCCCC
Q psy10320        185 DKPRGGG  191 (262)
Q Consensus       185 ~~~~~~~  191 (262)
                      +.++...
T Consensus        91 a~~~~~~   97 (104)
T 1wi8_A           91 ADQAQDK   97 (104)
T ss_dssp             CCCCCCC
T ss_pred             ccCCCCC
Confidence            9876543

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

Probab=99.72  E-value=5.7e-17  Score=109.25  Aligned_cols=81  Identities=28%  Similarity=0.375  Sum_probs=73.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      +..+|||+|||..+++++|+++|+.||.|..+.+.     +..+++|||+|.+.++|..|++.|+|..+.|+.|.|.++.
T Consensus        11 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   90 (102)
T 2cqb_A           11 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   90 (102)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEeCC
Confidence            46799999999999999999999999999999886     3468999999999999999999999999999999999998


Q ss_pred             CCCCCC
Q psy10320        187 PRGGGR  192 (262)
Q Consensus       187 ~~~~~~  192 (262)
                      +.....
T Consensus        91 ~~~~~~   96 (102)
T 2cqb_A           91 PMRIKE   96 (102)
T ss_dssp             CCCCCC
T ss_pred             CCCCCC
Confidence            765443

>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.72  E-value=5.4e-17  Score=108.28  Aligned_cols=77  Identities=13%  Similarity=0.198  Sum_probs=69.6

Q ss_pred             CCceEEEcCCCC-CCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCc--ccCCceEEEeecCCC
Q psy10320        112 SDHRLIVENLSS-RVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA--ELNGRRIRLIEDKPR  188 (262)
Q Consensus       112 ~~~~l~v~nl~~-~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~--~~~g~~~~v~~~~~~  188 (262)
                      +..+|||+|||+ .+++++|+++|++||.|..+.++. .+++|||+|++.++|..|++.|++.  .+.|+.|.|.++.+.
T Consensus        14 p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~-~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~   92 (102)
T 1x4d_A           14 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILN-KINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQKY   92 (102)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECS-SSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECCC
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEc-CCCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEECCCC
Confidence            467999999999 999999999999999999999875 3689999999999999999999865  599999999999754


Q ss_pred             C
Q psy10320        189 G  189 (262)
Q Consensus       189 ~  189 (262)
                      .
T Consensus        93 ~   93 (102)
T 1x4d_A           93 K   93 (102)
T ss_dssp             T
T ss_pred             C
Confidence            3

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

Probab=99.72  E-value=5.9e-17  Score=109.16  Aligned_cols=81  Identities=26%  Similarity=0.392  Sum_probs=73.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+..     ..+++|||+|.+.++|..|++.|||..+.|+.|.|.++
T Consensus        10 ~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   89 (102)
T 1x5s_A           10 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQA   89 (102)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            3467999999999999999999999999999998863     35789999999999999999999999999999999998


Q ss_pred             CCCCCC
Q psy10320        186 KPRGGG  191 (262)
Q Consensus       186 ~~~~~~  191 (262)
                      .+....
T Consensus        90 ~~~~~~   95 (102)
T 1x5s_A           90 GKSSDN   95 (102)
T ss_dssp             ECCCCC
T ss_pred             CCCCCC
Confidence            776543

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=99.72  E-value=1.3e-16  Score=108.13  Aligned_cols=80  Identities=15%  Similarity=0.216  Sum_probs=72.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCcccCC---ceEEEee
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNG---RRIRLIE  184 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g---~~~~v~~  184 (262)
                      ...+|||+|||..+++++|+++|+.||.|..+.+..    ..+++|||+|.+.++|..|+..|+|..+.|   +.|.|.+
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~~   93 (105)
T 2dnh_A           14 RDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKF   93 (105)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEEE
Confidence            367999999999999999999999999999998873    347899999999999999999999999998   9999999


Q ss_pred             cCCCCCC
Q psy10320        185 DKPRGGG  191 (262)
Q Consensus       185 ~~~~~~~  191 (262)
                      +.+....
T Consensus        94 a~~~~~~  100 (105)
T 2dnh_A           94 ADTDKES  100 (105)
T ss_dssp             SCSSCCC
T ss_pred             CccCccc
Confidence            9876543

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.72  E-value=1.2e-17  Score=113.41  Aligned_cols=73  Identities=18%  Similarity=0.282  Sum_probs=64.5

Q ss_pred             ccceEEEcCC----CCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCC----hhh----HHHHHH--HhcC
Q psy10320          2 VGTKVYIGGL----PYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFED----YRD----ADDAVY--ELNG   59 (262)
Q Consensus         2 ~~~~l~V~nl----~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~----~~~----a~~a~~--~l~~   59 (262)
                      |+++|||+||    |+.+++++|+++|+.||+|..|.+        ++|||||+|.+    +++    |..|+.  .|+|
T Consensus         1 mp~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng   80 (136)
T 2j8a_A            1 MSCEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSG   80 (136)
T ss_dssp             -CCEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTC
T ss_pred             CCcEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcC
Confidence            5789999999    999999999999999999999998        48999999996    444    788988  7899


Q ss_pred             cccCCceEEEEEccC
Q psy10320         60 KSLLGERVTVEIAKG   74 (262)
Q Consensus        60 ~~~~g~~l~v~~~~~   74 (262)
                      ..|+|+.|.|.+...
T Consensus        81 ~~I~Gr~irV~ln~~   95 (136)
T 2j8a_A           81 CFIMGFKFEVILNKH   95 (136)
T ss_dssp             EEETTEEEEEEECCT
T ss_pred             CeecCcEEEEEECcc
Confidence            999999999998764

>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=99.72  E-value=3e-17  Score=112.96  Aligned_cols=77  Identities=21%  Similarity=0.347  Sum_probs=70.3

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc---CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK---RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~---~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      ..+|||+|||..+++++|+++|++||.|..+.+..   .++|||||+|.+.++|..|++.|+|..++|+.|.|..+.++.
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~~~   84 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRK   84 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSCCC
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCcc
Confidence            34899999999999999999999999999998873   347899999999999999999999999999999999987653

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

Probab=99.72  E-value=2.7e-16  Score=107.64  Aligned_cols=81  Identities=17%  Similarity=0.320  Sum_probs=73.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhC------CcccCCce
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLD------NAELNGRR  179 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~------g~~~~g~~  179 (262)
                      .+..+|||+|||..+++++|+++|..||.|..+.+.     +..+++|||+|.+.++|..|+..|+      +..+.|+.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~   92 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQ   92 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEE
Confidence            346799999999999999999999999999999887     3468999999999999999999999      99999999


Q ss_pred             EEEeecCCCCCC
Q psy10320        180 IRLIEDKPRGGG  191 (262)
Q Consensus       180 ~~v~~~~~~~~~  191 (262)
                      |.|.++.++...
T Consensus        93 l~v~~a~~~~~~  104 (111)
T 1x4h_A           93 LKVDLAVTRDEA  104 (111)
T ss_dssp             EEEECCCCCCCC
T ss_pred             EEEEECCCCccC
Confidence            999999876443

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

Probab=99.72  E-value=1.4e-16  Score=106.83  Aligned_cols=79  Identities=18%  Similarity=0.292  Sum_probs=72.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ...+|||+|||..+++++|.++|+.||.|..+.+..    ..+++|||+|.+.++|..|++.|+|..+.|+.|.|.++.+
T Consensus        16 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   95 (100)
T 2do4_A           16 EKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAISNS   95 (100)
T ss_dssp             CCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            356999999999999999999999999999998873    4468999999999999999999999999999999999987


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      +..
T Consensus        96 ~~~   98 (100)
T 2do4_A           96 GPS   98 (100)
T ss_dssp             CSC
T ss_pred             CCC
Confidence            643

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

Probab=99.72  E-value=4.5e-17  Score=108.47  Aligned_cols=80  Identities=14%  Similarity=0.187  Sum_probs=71.9

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEE-ecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-DAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~-~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      .++|||+|||..+++++|.++|+.||.|..+ .+.     +..+++|||+|.+.++|..|+..|+|..+.|+.|.|.++.
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   84 (96)
T 1x5t_A            5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAF   84 (96)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEec
Confidence            5699999999999999999999999999877 665     3458999999999999999999999999999999999998


Q ss_pred             CCCCCC
Q psy10320        187 PRGGGR  192 (262)
Q Consensus       187 ~~~~~~  192 (262)
                      ++....
T Consensus        85 ~~~~~~   90 (96)
T 1x5t_A           85 KKDSKG   90 (96)
T ss_dssp             CCCCCC
T ss_pred             ccCCCC
Confidence            765443

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

Probab=99.71  E-value=1e-16  Score=106.89  Aligned_cols=79  Identities=19%  Similarity=0.266  Sum_probs=70.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      ....+|||+|||..+++++|+++|.+||.|....+.+..+++|||+|.+.++|..|+..|||..+.|+.|.|..+.++.
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~   95 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALRELGSVPLRLTWQGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQQR   95 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHTTCCCSEEEEETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECCCCC
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhcCCEEEEEEcCCCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCCC
Confidence            3467999999999999999999999999986223336778999999999999999999999999999999999987754

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.71  E-value=5.8e-18  Score=117.13  Aligned_cols=72  Identities=18%  Similarity=0.233  Sum_probs=64.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCce----eEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRI----RDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEI   71 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v----~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~   71 (262)
                      .++|||+|||+++|+++|+++|+.||.|    ..|.|       ++|||||+|.+.++|++||+. |+..|.|+.|.|..
T Consensus        23 ~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V~~  101 (123)
T 2dha_A           23 QVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK-HKDLLGKRYIELFR  101 (123)
T ss_dssp             CCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT-TTEESSSCEECCEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEEEE
Confidence            4799999999999999999999999975    56776       379999999999999999964 99999999999988


Q ss_pred             ccCC
Q psy10320         72 AKGI   75 (262)
Q Consensus        72 ~~~~   75 (262)
                      +...
T Consensus       102 a~~~  105 (123)
T 2dha_A          102 STAA  105 (123)
T ss_dssp             ECHH
T ss_pred             CCHH
Confidence            8644

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.71  E-value=2.5e-16  Score=105.14  Aligned_cols=78  Identities=13%  Similarity=0.138  Sum_probs=70.3

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHh--CCcccCCceEEEeecCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL--DNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l--~g~~~~g~~~~v~~~~~~~  189 (262)
                      +..+|||+|||..+++++|+++|++||.|..+.+... +|+|||+|++.++|..|++.|  ++..+.|+.|.|.++.++.
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~-kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~~~   92 (101)
T 2cq1_A           14 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG-KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHKE   92 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT-TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC-CCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEcCccc
Confidence            4679999999999999999999999999999987754 899999999999999999977  4678999999999998654


Q ss_pred             C
Q psy10320        190 G  190 (262)
Q Consensus       190 ~  190 (262)
                      -
T Consensus        93 ~   93 (101)
T 2cq1_A           93 L   93 (101)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.71  E-value=1.5e-17  Score=109.36  Aligned_cols=77  Identities=13%  Similarity=0.249  Sum_probs=68.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCC-ceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhC-CcccCCceEEEeecC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLD-NAELNGRRIRLIEDK  186 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g-~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~-g~~~~g~~~~v~~~~  186 (262)
                      ++|||+|||..+++++|+++|++|| .|..+.+.     +.++|+|||+|.+.++|.+|++.++ +..++|+.|.|.++.
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a~   81 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSD   81 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEcC
Confidence            5899999999999999999999999 78888776     4578999999999999999999874 568999999999998


Q ss_pred             CCCC
Q psy10320        187 PRGG  190 (262)
Q Consensus       187 ~~~~  190 (262)
                      ++..
T Consensus        82 ~~~~   85 (91)
T 2lxi_A           82 PKPK   85 (91)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            7643

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

Probab=99.71  E-value=3.4e-16  Score=104.74  Aligned_cols=77  Identities=25%  Similarity=0.289  Sum_probs=70.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcC--CceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQV--GEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~--g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .+.++|||+|||..+++++|+++|++|  |.|..+.+.   +++|||+|.+.++|..|+..|+|..+.|+.|.|.++.++
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~---~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~   89 (99)
T 2cpd_A           13 SSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI---RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPV   89 (99)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC---SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCC
T ss_pred             CCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe---CCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECCCC
Confidence            346799999999999999999999999  899988874   689999999999999999999999999999999999876


Q ss_pred             CC
Q psy10320        189 GG  190 (262)
Q Consensus       189 ~~  190 (262)
                      ..
T Consensus        90 ~~   91 (99)
T 2cpd_A           90 DK   91 (99)
T ss_dssp             CC
T ss_pred             CC
Confidence            44

>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=99.71  E-value=7.4e-17  Score=104.91  Aligned_cols=76  Identities=29%  Similarity=0.400  Sum_probs=69.6

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .+..+|||+|||..+++++|+++|++||.|..+.+.     +..+++|||+|.+.++|..|++.|||..+.|+.|.|.++
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   84 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   84 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            346799999999999999999999999999999885     336899999999999999999999999999999999886


Q ss_pred             C
Q psy10320        186 K  186 (262)
Q Consensus       186 ~  186 (262)
                      +
T Consensus        85 k   85 (85)
T 3mdf_A           85 K   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.71  E-value=1.5e-16  Score=105.88  Aligned_cols=79  Identities=19%  Similarity=0.291  Sum_probs=71.8

Q ss_pred             CCceEEEcCCCCCCCHHHHH----HHhhcCCceEEEecccC--CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        112 SDHRLIVENLSSRVSWQDLK----DFMRQVGEVCYADAHKR--HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~----~~f~~~g~i~~~~~~~~--~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ..++|||+|||..+++++|+    ++|++||.|..+.+...  .+++|||+|.+.++|.+|++.|||..+.|+.|.|..+
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a   87 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLA   87 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCCCeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence            35799999999999999999    99999999999998732  2789999999999999999999999999999999999


Q ss_pred             CCCCC
Q psy10320        186 KPRGG  190 (262)
Q Consensus       186 ~~~~~  190 (262)
                      .+...
T Consensus        88 ~~~~~   92 (96)
T 2dgx_A           88 TGASG   92 (96)
T ss_dssp             CCSSC
T ss_pred             CCCCC
Confidence            76543

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A

Probab=99.71  E-value=1.8e-17  Score=114.93  Aligned_cols=70  Identities=23%  Similarity=0.366  Sum_probs=63.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCcee--EEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIR--DVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~--~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+++|+++|+++|+.| .|.  .|.|.       +|||||+|.++++|++||+ +++..|.|+.|.|.++.
T Consensus        42 ~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~-~~~~~l~gR~I~V~~a~  119 (126)
T 2hgm_A           42 DGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALG-KHKERIGHRYIEVFKSS  119 (126)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHT-TTTCCBTTBCCCCEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHH-HCCCEECCEEEEEEECC
Confidence            4799999999999999999999999 566  78873       7999999999999999995 58899999999998875


Q ss_pred             C
Q psy10320         74 G   74 (262)
Q Consensus        74 ~   74 (262)
                      .
T Consensus       120 ~  120 (126)
T 2hgm_A          120 Q  120 (126)
T ss_dssp             H
T ss_pred             H
Confidence            4

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

Probab=99.71  E-value=2.4e-16  Score=107.62  Aligned_cols=77  Identities=16%  Similarity=0.268  Sum_probs=70.8

Q ss_pred             CCCceEEEcCCCCC-CCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        111 RSDHRLIVENLSSR-VSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       111 ~~~~~l~v~nl~~~-~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      ....+|||+|||.. +++++|+++|++||.|..+.+   .+++|||+|.+.++|..|+..|+|..++|+.|.|.++.+..
T Consensus        25 ~~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i---~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~  101 (110)
T 1wf1_A           25 SINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV---HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGEPK  101 (110)
T ss_dssp             TCSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE---ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESCCCC
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE---eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCCCC
Confidence            34579999999999 999999999999999999988   68999999999999999999999999999999999987543


Q ss_pred             C
Q psy10320        190 G  190 (262)
Q Consensus       190 ~  190 (262)
                      .
T Consensus       102 ~  102 (110)
T 1wf1_A          102 P  102 (110)
T ss_dssp             S
T ss_pred             C
Confidence            3

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

Probab=99.71  E-value=1.8e-16  Score=104.23  Aligned_cols=76  Identities=24%  Similarity=0.405  Sum_probs=70.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      ...+|||+|||..+++++|+++|++||.|..+.+.   +++|||+|.+.++|..|+..|+|..+.|+.|.|..+.+...
T Consensus         8 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~---~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~   83 (90)
T 2dnp_A            8 NTWKIFVGNVSAACTSQELRSLFERRGRVIECDVV---KDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTKGQK   83 (90)
T ss_dssp             CSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEEC---SSCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESCCCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEE---CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECCCCCC
Confidence            36699999999999999999999999999999986   56999999999999999999999999999999999987643

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

Probab=99.71  E-value=2.2e-16  Score=112.52  Aligned_cols=84  Identities=18%  Similarity=0.317  Sum_probs=74.7

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       108 ~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      +......+|||+|||..+++++|.++|+.||.|..+.+.     +..+|+|||+|.+.++|.+|++.|+|..+.|+.|.|
T Consensus        37 ~~~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v  116 (139)
T 1u6f_A           37 PEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKV  116 (139)
T ss_dssp             CCTTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            344556799999999999999999999999999999886     234789999999999999999999999999999999


Q ss_pred             eecCCCCCC
Q psy10320        183 IEDKPRGGG  191 (262)
Q Consensus       183 ~~~~~~~~~  191 (262)
                      ..+.+....
T Consensus       117 ~~a~~~~~~  125 (139)
T 1u6f_A          117 ALAASGHQR  125 (139)
T ss_dssp             EESSCCCCC
T ss_pred             EECCCCCCC
Confidence            999876443

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=99.71  E-value=4.7e-17  Score=106.34  Aligned_cols=77  Identities=22%  Similarity=0.327  Sum_probs=69.3

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      +..+|||+|||..+++++|+++|++||.|..+.+..     ..+|+|||+|.+.++|..|+..|+|..+.|+.|.|.++.
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   84 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWAT   84 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEecC
Confidence            367999999999999999999999999999998863     357899999999999999999999999999999999987


Q ss_pred             CC
Q psy10320        187 PR  188 (262)
Q Consensus       187 ~~  188 (262)
                      ++
T Consensus        85 ~k   86 (87)
T 3bs9_A           85 RK   86 (87)
T ss_dssp             --
T ss_pred             CC
Confidence            64

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

Probab=99.71  E-value=2e-16  Score=104.88  Aligned_cols=76  Identities=18%  Similarity=0.265  Sum_probs=69.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .+..+|||+|||..+++++|+++|++||.|..+.+.     +..+++|||+|.+.++|..|++.|+|..+.|+.|.|.++
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   93 (94)
T 2e5h_A           14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASIA   93 (94)
T ss_dssp             CCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEec
Confidence            346799999999999999999999999999999886     345789999999999999999999999999999999886


Q ss_pred             C
Q psy10320        186 K  186 (262)
Q Consensus       186 ~  186 (262)
                      +
T Consensus        94 k   94 (94)
T 2e5h_A           94 I   94 (94)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.71  E-value=3.8e-17  Score=125.01  Aligned_cols=74  Identities=26%  Similarity=0.417  Sum_probs=69.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|      .+|||||+|.+.++|++||+.|||..|+|+.|.|.++....
T Consensus       103 ~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~~~~  182 (213)
T 4f02_A          103 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRK  182 (213)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCHH
T ss_pred             cccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCCCceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcCCCc
Confidence            368999999999999999999999999999998      37999999999999999999999999999999999997653

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

Probab=99.71  E-value=4.2e-16  Score=107.15  Aligned_cols=79  Identities=28%  Similarity=0.420  Sum_probs=71.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ...++|||+|||..+++++|+++|.+||.|..+.+..    ..+++|||+|.+.++|..|+..|+|..+.|+.|.|.++.
T Consensus        13 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   92 (114)
T 2do0_A           13 RLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDE   92 (114)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEcc
Confidence            3367999999999999999999999999999988873    346899999999999999999999999999999999987


Q ss_pred             CCC
Q psy10320        187 PRG  189 (262)
Q Consensus       187 ~~~  189 (262)
                      ...
T Consensus        93 ~~~   95 (114)
T 2do0_A           93 RAL   95 (114)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            543

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

Probab=99.54  E-value=7.5e-19  Score=121.35  Aligned_cols=75  Identities=24%  Similarity=0.383  Sum_probs=68.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeE--------EEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCce
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRD--------VILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGER   66 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~--------v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~   66 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..        |.|.        +|||||+|.+.++|+.|+..|||..|.|+.
T Consensus         7 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   86 (116)
T 2lcw_A            7 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNP   86 (116)
Confidence            579999999999999999999999999988        6662        689999999999999999999999999999


Q ss_pred             EEEEEccCCCc
Q psy10320         67 VTVEIAKGIDR   77 (262)
Q Consensus        67 l~v~~~~~~~~   77 (262)
                      |.|.++.....
T Consensus        87 l~V~~a~~~~~   97 (116)
T 2lcw_A           87 IKVSFATRRAD   97 (116)
Confidence            99999986543

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

Probab=99.71  E-value=9.3e-17  Score=106.07  Aligned_cols=80  Identities=31%  Similarity=0.532  Sum_probs=72.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc---CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK---RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~---~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .+..+|||+|||..+++++|+++|++||.|..+.+..   ..+++|||+|.+.++|..|+..|+|..+.|+.|.|.++.+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   85 (92)
T 2dgv_A            6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDRN   85 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECSC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCC
Confidence            3467999999999999999999999999999998873   4578999999999999999999999999999999999877


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      ...
T Consensus        86 ~~~   88 (92)
T 2dgv_A           86 ASG   88 (92)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            644

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A

Probab=99.71  E-value=2e-16  Score=107.33  Aligned_cols=80  Identities=15%  Similarity=0.251  Sum_probs=72.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCccc---CCceEEE
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAEL---NGRRIRL  182 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~---~g~~~~v  182 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+..     ..+++|||+|.+.++|..|+..|+|..+   .|+.|.|
T Consensus        11 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~v   90 (106)
T 2dgp_A           11 HDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQV   90 (106)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEEE
Confidence            3467999999999999999999999999999998873     3579999999999999999999999988   8999999


Q ss_pred             eecCCCCC
Q psy10320        183 IEDKPRGG  190 (262)
Q Consensus       183 ~~~~~~~~  190 (262)
                      .++.+...
T Consensus        91 ~~a~~~~~   98 (106)
T 2dgp_A           91 KPADSESR   98 (106)
T ss_dssp             EECCCCSC
T ss_pred             EECCcccc
Confidence            99987644

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

Probab=99.70  E-value=6.2e-17  Score=108.82  Aligned_cols=77  Identities=21%  Similarity=0.233  Sum_probs=71.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      ++|||+|||..+++++|+++|++||.|..+.+....+++|||+|.+.++|.+|++.|+|..+.|+.|.|..+.+...
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~   77 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTGMPR   77 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESSSSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSSCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccCCCC
Confidence            37999999999999999999999999999988866789999999999999999999999999999999999987653

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.70  E-value=2.7e-17  Score=126.06  Aligned_cols=73  Identities=22%  Similarity=0.338  Sum_probs=67.7

Q ss_pred             cceEEEcCCCCCC---------CHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCccc---------
Q psy10320          3 GTKVYIGGLPYGV---------RERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSL---------   62 (262)
Q Consensus         3 ~~~l~V~nl~~~~---------t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~---------   62 (262)
                      .+||||+||+..+         |+++|+++|+.||+|.+|.|.  +|||||+|.+.++|+.|++.|+|..|         
T Consensus       134 ~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~~~e~~  213 (240)
T 3u1l_A          134 NKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVESKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKEWD  213 (240)
T ss_dssp             CCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGGGTEEEEEESSHHHHHHHHHHHTTCCCCCTTSTTGG
T ss_pred             CceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECCCCEEEEEeCCHHHHHHHHHHhCCCEEecccccccc
Confidence            4799999999998         799999999999999999984  89999999999999999999999999         


Q ss_pred             ---CCceEEEEEccCC
Q psy10320         63 ---LGERVTVEIAKGI   75 (262)
Q Consensus        63 ---~g~~l~v~~~~~~   75 (262)
                         .|+.|.|.|+...
T Consensus       214 ~~~~gr~L~V~wA~~~  229 (240)
T 3u1l_A          214 DRREGTGLLVKWANED  229 (240)
T ss_dssp             GGGGSCCCEEEECC--
T ss_pred             ccCCCCEEEEEEccCC
Confidence               8999999999864

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

Probab=99.70  E-value=1.2e-16  Score=106.87  Aligned_cols=79  Identities=20%  Similarity=0.321  Sum_probs=71.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc--------CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK--------RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~--------~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      .++|||+|||..+++++|+++|+.||.|..+.+..        ..+++|||+|.+.++|.+|+..|+|..+.|+.|.|.+
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   84 (98)
T 2cpf_A            5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRI   84 (98)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            56999999999999999999999999999998862        3468999999999999999999999999999999999


Q ss_pred             cCCCCCC
Q psy10320        185 DKPRGGG  191 (262)
Q Consensus       185 ~~~~~~~  191 (262)
                      +.+....
T Consensus        85 a~~~~~~   91 (98)
T 2cpf_A           85 SERATKP   91 (98)
T ss_dssp             SSCSSCC
T ss_pred             ccCCCCC
Confidence            9776443

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

Probab=99.70  E-value=1.5e-16  Score=105.88  Aligned_cols=77  Identities=14%  Similarity=0.199  Sum_probs=71.3

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|.++|++||.|..+.+.     +..+|+|||+|.+.++|..|++.|+|..++|+.|.|.++.+
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   81 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSN   81 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcCC
Confidence            5699999999999999999999999999999887     34589999999999999999999999999999999999877


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      ..
T Consensus        82 ~~   83 (96)
T 2x1f_A           82 SD   83 (96)
T ss_dssp             SS
T ss_pred             CC
Confidence            54

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

Probab=99.70  E-value=1.5e-16  Score=105.72  Aligned_cols=77  Identities=29%  Similarity=0.386  Sum_probs=70.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .+..+|||+|||..+++++|+++|+.||.|..+.+.     +..+++|||+|.+.++|.+|+..|+|..+.|+.|.|.++
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   92 (95)
T 2cqc_A           13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSGP   92 (95)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEec
Confidence            346799999999999999999999999999999886     345789999999999999999999999999999999987


Q ss_pred             CC
Q psy10320        186 KP  187 (262)
Q Consensus       186 ~~  187 (262)
                      +.
T Consensus        93 ~~   94 (95)
T 2cqc_A           93 SS   94 (95)
T ss_dssp             SC
T ss_pred             CC
Confidence            64

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

Probab=99.70  E-value=2.6e-16  Score=106.11  Aligned_cols=80  Identities=21%  Similarity=0.260  Sum_probs=71.1

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ..+.++|||+|||..+++++|+++|+.|| |..+.+.     +..+|+|||+|.+.++|..|+ .|+|..+.|+.|.|.+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~   89 (103)
T 2dng_A           12 TEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLGDRSLRVDI   89 (103)
T ss_dssp             SSSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEETTEECEEEE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeECCeEEEEEE
Confidence            34467999999999999999999999997 9888886     335789999999999999999 8999999999999999


Q ss_pred             cCCCCCC
Q psy10320        185 DKPRGGG  191 (262)
Q Consensus       185 ~~~~~~~  191 (262)
                      +.++...
T Consensus        90 a~~~~~~   96 (103)
T 2dng_A           90 AEGRKQD   96 (103)
T ss_dssp             CCCCCCC
T ss_pred             ecCCCCC
Confidence            9876543

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A

Probab=99.70  E-value=1.2e-16  Score=112.01  Aligned_cols=79  Identities=28%  Similarity=0.357  Sum_probs=72.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .+..+|||+|||..+++++|+++|+.||.|..+.+.     +..+|+|||+|.+.++|.+|+..|+|..|.|+.|.|.++
T Consensus        44 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~a  123 (129)
T 2kxn_B           44 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFS  123 (129)
T ss_dssp             CCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            446799999999999999999999999999999886     356899999999999999999999999999999999998


Q ss_pred             CCCC
Q psy10320        186 KPRG  189 (262)
Q Consensus       186 ~~~~  189 (262)
                      .++.
T Consensus       124 ~~~~  127 (129)
T 2kxn_B          124 ITKR  127 (129)
T ss_dssp             SSSS
T ss_pred             cCCC
Confidence            7654

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.70  E-value=1.3e-16  Score=108.33  Aligned_cols=81  Identities=25%  Similarity=0.343  Sum_probs=72.8

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       109 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      +.....+|||+|||..+++++|+++|+.||.|..+.+.     +..+|+|||+|.+.++|..|++.|+|..+.|+.|.|.
T Consensus        22 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~  101 (108)
T 2jrs_A           22 GSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVG  101 (108)
T ss_dssp             SCSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            34446799999999999999999999999999999886     3347899999999999999999999999999999999


Q ss_pred             ecCCCC
Q psy10320        184 EDKPRG  189 (262)
Q Consensus       184 ~~~~~~  189 (262)
                      .+.++.
T Consensus       102 ~a~~k~  107 (108)
T 2jrs_A          102 HVTERT  107 (108)
T ss_dssp             CSCSSC
T ss_pred             EcccCC
Confidence            987753

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

Probab=99.70  E-value=3.1e-16  Score=103.52  Aligned_cols=78  Identities=26%  Similarity=0.387  Sum_probs=71.6

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      ...++|||+|||..+++++|+++|++||.|..+.+.   +++|||+|.+.++|.+|+..|||..+.|+.|.|.++.++..
T Consensus         8 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~---~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~   84 (92)
T 2dgt_A            8 KASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV---KDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLR   84 (92)
T ss_dssp             CSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEEC---SSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESSCCCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEE---CCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccCCCC
Confidence            346799999999999999999999999999999886   56999999999999999999999999999999999987654


Q ss_pred             C
Q psy10320        191 G  191 (262)
Q Consensus       191 ~  191 (262)
                      .
T Consensus        85 ~   85 (92)
T 2dgt_A           85 T   85 (92)
T ss_dssp             C
T ss_pred             C
Confidence            3

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.70  E-value=1.2e-16  Score=103.45  Aligned_cols=75  Identities=24%  Similarity=0.366  Sum_probs=69.7

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .+|||+|||..+++++|.++|+.||.|..+.+.     +..+|+|||+|.+.++|..|+..|+|..+.|+.|.|..+.++
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~   81 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAKL   81 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecCcC
Confidence            489999999999999999999999999999876     344789999999999999999999999999999999998875

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.69  E-value=1e-16  Score=109.65  Aligned_cols=79  Identities=13%  Similarity=0.157  Sum_probs=71.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCC--cccCCceEEEeecCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDN--AELNGRRIRLIEDKPRG  189 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g--~~~~g~~~~v~~~~~~~  189 (262)
                      +..+|||+|||+.+++++|+++|++||.|..+.+... +|+|||+|++.++|.+|++.|++  ..+.|+.|.|.++.++.
T Consensus        30 ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~-kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~k~  108 (119)
T 2ad9_A           30 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG-KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKE  108 (119)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG-GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEECSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC-CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEccCCC
Confidence            4679999999999999999999999999999988754 79999999999999999998874  68999999999997664


Q ss_pred             CC
Q psy10320        190 GG  191 (262)
Q Consensus       190 ~~  191 (262)
                      -.
T Consensus       109 ~~  110 (119)
T 2ad9_A          109 LK  110 (119)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.69  E-value=4.4e-16  Score=104.58  Aligned_cols=78  Identities=18%  Similarity=0.284  Sum_probs=69.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCc--ccCCceEEEeecCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA--ELNGRRIRLIEDKPRG  189 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~--~~~g~~~~v~~~~~~~  189 (262)
                      +..+|||+|||..+++++|+++|++||.|..+.+.. .+++|||+|++.++|.+|++.|++.  .+.|+.|.|.++.++.
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~-~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~~~~   92 (104)
T 1wex_A           14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP-FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSKR   92 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET-TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEC-CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEccCcc
Confidence            367999999999999999999999999999998875 4799999999999999999988764  5999999999987654


Q ss_pred             C
Q psy10320        190 G  190 (262)
Q Consensus       190 ~  190 (262)
                      .
T Consensus        93 ~   93 (104)
T 1wex_A           93 I   93 (104)
T ss_dssp             C
T ss_pred             c
Confidence            3

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.69  E-value=2.6e-16  Score=107.24  Aligned_cols=78  Identities=10%  Similarity=0.196  Sum_probs=72.6

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      ..++|||+|||..+++++|+++|+.||.|..+.+... +++|||+|.+.++|..|+..|+|..+.|+.|.|.++.+...
T Consensus        24 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~-~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~  101 (109)
T 1x4g_A           24 KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESPD  101 (109)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT-TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCCCS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC-CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecCCCCC
Confidence            3679999999999999999999999999999998865 89999999999999999999999999999999999987654

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

Probab=99.69  E-value=1.8e-16  Score=106.18  Aligned_cols=78  Identities=21%  Similarity=0.416  Sum_probs=69.7

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEE--------Eecc-----cCCCceEEEEecCHHHHHHHHHHhCCccc
Q psy10320        109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCY--------ADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAEL  175 (262)
Q Consensus       109 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~--------~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~  175 (262)
                      +..+.++|||+|||..+++++|+++|++||.|..        +.+.     +..+|+|||+|.+.++|..|++.|+|..+
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~   88 (99)
T 2la6_A            9 SHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEF   88 (99)
T ss_dssp             SCCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEe
Confidence            3445679999999999999999999999999988        7665     34578999999999999999999999999


Q ss_pred             CCceEEEeecC
Q psy10320        176 NGRRIRLIEDK  186 (262)
Q Consensus       176 ~g~~~~v~~~~  186 (262)
                      .|+.|.|..++
T Consensus        89 ~g~~l~V~~A~   99 (99)
T 2la6_A           89 SGNPIKVSFAT   99 (99)
T ss_dssp             SSSBCEEEECC
T ss_pred             CCcEEEEEecC
Confidence            99999998863

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.69  E-value=7.6e-16  Score=106.22  Aligned_cols=76  Identities=24%  Similarity=0.228  Sum_probs=68.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCce-EEEEecCHHHHHHHHHHhCCcccCC--ceEEEeecCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE-GVVEFESSSDMKKALDKLDNAELNG--RRIRLIEDKPRG  189 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~-~~v~f~~~~~a~~a~~~l~g~~~~g--~~~~v~~~~~~~  189 (262)
                      ...|||+||++.+++++|.++|++||.|..+.+... .|+ |||+|++.++|..|++.|||..|.|  +.|+|.+++++.
T Consensus        25 vl~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~-~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak~~~  103 (124)
T 2e5i_A           25 VLLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKR-NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARPTR  103 (124)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEES-SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCSCSC
T ss_pred             EEEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeC-CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEecCCc
Confidence            345789999999999999999999999999988754 485 9999999999999999999999987  689999998764

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D*

Probab=99.69  E-value=1.7e-16  Score=108.36  Aligned_cols=80  Identities=18%  Similarity=0.227  Sum_probs=72.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ...++|||+|||..+++++|.++|+.||.|..+.+.     +..+|+|||+|.+.++|..|+..|+|..+.|+.|.|.++
T Consensus        24 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  103 (110)
T 1oo0_B           24 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC  103 (110)
T ss_dssp             TTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEc
Confidence            346799999999999999999999999999999886     345799999999999999999999999999999999998


Q ss_pred             CCCCC
Q psy10320        186 KPRGG  190 (262)
Q Consensus       186 ~~~~~  190 (262)
                      .++..
T Consensus       104 ~~~~~  108 (110)
T 1oo0_B          104 FVKGP  108 (110)
T ss_dssp             EESSC
T ss_pred             ccCCC
Confidence            76543

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

Probab=99.69  E-value=1.2e-16  Score=108.77  Aligned_cols=78  Identities=28%  Similarity=0.451  Sum_probs=71.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc---cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH---KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+.   +..+|+|||+|.+.++|.+|+..|+|..++|+.|.|..+.+
T Consensus        27 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  106 (109)
T 2err_A           27 SQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATA  106 (109)
T ss_dssp             TCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            346799999999999999999999999999988886   33589999999999999999999999999999999999876


Q ss_pred             C
Q psy10320        188 R  188 (262)
Q Consensus       188 ~  188 (262)
                      +
T Consensus       107 ~  107 (109)
T 2err_A          107 R  107 (109)
T ss_dssp             S
T ss_pred             C
Confidence            4

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.69  E-value=5.1e-16  Score=107.39  Aligned_cols=78  Identities=17%  Similarity=0.269  Sum_probs=70.2

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       109 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      .....++|||+|||..+++++|+++|++||.|..+.+.     +..+|+|||+|.+.++|..|++.|||..++|+.|.|.
T Consensus        36 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~  115 (118)
T 2khc_A           36 EGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQ  115 (118)
T ss_dssp             CCCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            34456799999999999999999999999999999886     3458999999999999999999999999999999998


Q ss_pred             ecC
Q psy10320        184 EDK  186 (262)
Q Consensus       184 ~~~  186 (262)
                      +++
T Consensus       116 ~ak  118 (118)
T 2khc_A          116 LKK  118 (118)
T ss_dssp             EC-
T ss_pred             ecC
Confidence            763

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

Probab=99.69  E-value=3e-16  Score=104.50  Aligned_cols=76  Identities=18%  Similarity=0.321  Sum_probs=70.3

Q ss_pred             CCCCceEEEcCCCC-CCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        110 TRSDHRLIVENLSS-RVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       110 ~~~~~~l~v~nl~~-~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ....++|||+|||. .+++++|+++|+.||.|..+.+   .+|+|||+|.+.++|..|+..|+|..+.|+.|.|.++.+.
T Consensus        19 ~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i---~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   95 (97)
T 2xnq_A           19 SHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI---KNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSSSN   95 (97)
T ss_dssp             CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEE---CSSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEECCCC
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEE---eCCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCCC
Confidence            34467999999998 9999999999999999999988   4799999999999999999999999999999999998764

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

Probab=99.69  E-value=7.7e-17  Score=106.45  Aligned_cols=75  Identities=16%  Similarity=0.234  Sum_probs=66.4

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCc--eEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCc----ccCCceEE
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGE--VCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNA----ELNGRRIR  181 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~--i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~----~~~g~~~~  181 (262)
                      -.+|||+|||+.+++++|.++|++||.  +..+.+.     +.++|||||+|.+.++|.+|++.|||.    .++|+.|.
T Consensus         9 m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i~   88 (95)
T 2lkz_A            9 MDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIG   88 (95)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEEE
T ss_pred             cCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEEE
Confidence            459999999999999999999999995  4566654     456899999999999999999999997    48999999


Q ss_pred             EeecCC
Q psy10320        182 LIEDKP  187 (262)
Q Consensus       182 v~~~~~  187 (262)
                      |.+++.
T Consensus        89 V~~Aks   94 (95)
T 2lkz_A           89 VDFAKS   94 (95)
T ss_dssp             EEECCC
T ss_pred             EEEccC
Confidence            999863

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.69  E-value=2.2e-16  Score=106.84  Aligned_cols=80  Identities=13%  Similarity=0.127  Sum_probs=70.7

Q ss_pred             CCCCceEEEcCCCCC-CCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhC--CcccCCceEEEeecC
Q psy10320        110 TRSDHRLIVENLSSR-VSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLD--NAELNGRRIRLIEDK  186 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~-~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~--g~~~~g~~~~v~~~~  186 (262)
                      ..+..+|||+|||++ +++++|+++|++||.|..+.+.. .+++|||+|++.++|..|++.|+  +..+.|+.|.|.++.
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~-~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~a~  100 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR-MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSE  100 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET-TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEEC
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEec-CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEECc
Confidence            334779999999998 99999999999999999998864 57999999999999999999886  456999999999987


Q ss_pred             CCCC
Q psy10320        187 PRGG  190 (262)
Q Consensus       187 ~~~~  190 (262)
                      ++..
T Consensus       101 ~~~~  104 (112)
T 1x4f_A          101 KYKK  104 (112)
T ss_dssp             SCSS
T ss_pred             cccc
Confidence            6543

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

Probab=99.69  E-value=2.5e-16  Score=109.58  Aligned_cols=79  Identities=8%  Similarity=0.222  Sum_probs=71.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHH----HHhhcCCceEEEecc--cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        111 RSDHRLIVENLSSRVSWQDLK----DFMRQVGEVCYADAH--KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~----~~f~~~g~i~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      .+.++|||+|||..+++++|+    ++|++||.|..+.+.  +..+|+|||+|.+.++|..|+..|||..+.|+.|.|.+
T Consensus        27 ~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~  106 (127)
T 2a3j_A           27 EPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITF  106 (127)
T ss_dssp             SCCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECCCCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEeccCCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEE
Confidence            346799999999999999866    799999999988776  46789999999999999999999999999999999999


Q ss_pred             cCCCC
Q psy10320        185 DKPRG  189 (262)
Q Consensus       185 ~~~~~  189 (262)
                      +.++.
T Consensus       107 a~~~~  111 (127)
T 2a3j_A          107 SETPQ  111 (127)
T ss_dssp             CCCCC
T ss_pred             ccCcc
Confidence            87653

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

Probab=99.69  E-value=2.5e-16  Score=106.44  Aligned_cols=80  Identities=21%  Similarity=0.272  Sum_probs=72.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhc-CCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCcc-cCCceEEEee
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQ-VGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAE-LNGRRIRLIE  184 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~-~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~-~~g~~~~v~~  184 (262)
                      .+.++|||+|||..+++++|+++|.. ||.|..+.+..    ..+++|||+|.+.++|..|+..|+|.. +.|+.|.|.+
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~   86 (104)
T 2dhg_A            7 GPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSV   86 (104)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCB
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEE
Confidence            34679999999999999999999999 99999998863    467899999999999999999999999 9999999999


Q ss_pred             cCCCCC
Q psy10320        185 DKPRGG  190 (262)
Q Consensus       185 ~~~~~~  190 (262)
                      +.++..
T Consensus        87 a~~~~~   92 (104)
T 2dhg_A           87 AIPKAS   92 (104)
T ss_dssp             CCCCCS
T ss_pred             ccCCCc
Confidence            876644

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

Probab=99.69  E-value=4.1e-16  Score=107.02  Aligned_cols=80  Identities=20%  Similarity=0.402  Sum_probs=71.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceE--------EEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCc
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVC--------YADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGR  178 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~--------~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~  178 (262)
                      ..++|||+|||..+++++|+++|++||.|.        .+.+.     +..+++|||+|.+.++|..|+..|+|..+.|+
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~   93 (113)
T 2cpe_A           14 DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGS   93 (113)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccCCC
Confidence            467999999999999999999999999998        46665     34578999999999999999999999999999


Q ss_pred             eEEEeecCCCCCC
Q psy10320        179 RIRLIEDKPRGGG  191 (262)
Q Consensus       179 ~~~v~~~~~~~~~  191 (262)
                      .|.|..+.++...
T Consensus        94 ~l~V~~a~~~~~~  106 (113)
T 2cpe_A           94 KLKVSLARKKPPM  106 (113)
T ss_dssp             ECEEECSSCCCCS
T ss_pred             EEEEEECCCCCCC
Confidence            9999999876543

>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=99.69  E-value=2.4e-16  Score=103.18  Aligned_cols=77  Identities=18%  Similarity=0.328  Sum_probs=70.6

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----C-CCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----R-HRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~-~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..+|||+|||..+++++|.++|++||.|..+.+..     . .+|+|||+|.+.++|..|+..|||..++|+.|.|..+.
T Consensus         4 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   83 (88)
T 4a8x_A            4 PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAVL   83 (88)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEECC
Confidence            46899999999999999999999999999998862     2 68999999999999999999999999999999999987


Q ss_pred             CCC
Q psy10320        187 PRG  189 (262)
Q Consensus       187 ~~~  189 (262)
                      +..
T Consensus        84 ~~~   86 (88)
T 4a8x_A           84 APW   86 (88)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            643

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.68  E-value=6.3e-16  Score=106.46  Aligned_cols=81  Identities=21%  Similarity=0.254  Sum_probs=71.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCce----EEEecc-cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEV----CYADAH-KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i----~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .+.++|||+|||..+++++|.++|..||.|    ..+.+. +..+|+|||+|.+.++|..|+..|+|..+.|+.|.|.++
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a  102 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFG  102 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEc
Confidence            346799999999999999999999999987    445443 667899999999999999999999999999999999999


Q ss_pred             CCCCCC
Q psy10320        186 KPRGGG  191 (262)
Q Consensus       186 ~~~~~~  191 (262)
                      .++...
T Consensus       103 ~~~~~~  108 (115)
T 2cpx_A          103 KNKKQR  108 (115)
T ss_dssp             CCCSCC
T ss_pred             cCCCCC
Confidence            876543

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

Probab=99.68  E-value=1.6e-16  Score=107.85  Aligned_cols=77  Identities=18%  Similarity=0.285  Sum_probs=71.5

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      ....++|||+|||..+++++|+++|++||.|..+.+.   +|+|||+|.+.++|..|+..|+|..++|+.|.|.++.+..
T Consensus        28 ~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~---kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~  104 (108)
T 2jvo_A           28 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL---NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKLPA  104 (108)
T ss_dssp             CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE---TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESCSCCC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE---CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecCCC
Confidence            3446799999999999999999999999999999887   7999999999999999999999999999999999987653

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

Probab=99.68  E-value=5.2e-16  Score=104.27  Aligned_cols=79  Identities=27%  Similarity=0.437  Sum_probs=69.3

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEec-ccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADA-HKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~-~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      ...+|||+|||..+++++|+++|.+||.|..+.. .+..+++|||+|.+.++|.+|+..|+|..+.|+.|.|.++.++..
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~~~   93 (101)
T 2fc9_A           14 ESKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGPRGS   93 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHCSSCSEEECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEECSSCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEcCCCCC
Confidence            4679999999999999999999999998843222 245789999999999999999999999999999999999987644

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

Probab=99.68  E-value=1.4e-16  Score=116.87  Aligned_cols=71  Identities=24%  Similarity=0.452  Sum_probs=67.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..+.+.        +|+|||+|.+.++|..|+..|||..|+|+.|.|.++.
T Consensus        87 ~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~  165 (166)
T 3md3_A           87 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAA  165 (166)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             CceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccCCcEEEEEecC
Confidence            5789999999999999999999999999999883        6799999999999999999999999999999999985

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

Probab=99.68  E-value=1.5e-16  Score=109.24  Aligned_cols=68  Identities=19%  Similarity=0.357  Sum_probs=58.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEI   71 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~   71 (262)
                      .++|||+|||+.+|+++|+++|+.||+|. +.+.           +|||||+|.++++|+.||+.|++  ++|+.|.+..
T Consensus         8 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~--~~G~~~~~~~   84 (114)
T 2dnl_A            8 SRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLE--EDGKLYLCVS   84 (114)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEE--ETTEEEEEEC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhh--cCCcEEEecc
Confidence            58999999999999999999999999998 6552           68999999999999999998843  6677666654


Q ss_pred             cc
Q psy10320         72 AK   73 (262)
Q Consensus        72 ~~   73 (262)
                      +.
T Consensus        85 ~~   86 (114)
T 2dnl_A           85 SP   86 (114)
T ss_dssp             CS
T ss_pred             CC
Confidence            44

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.68  E-value=6.6e-16  Score=103.37  Aligned_cols=78  Identities=22%  Similarity=0.342  Sum_probs=71.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      +..+|||+|||..+++++|+++|++||.|..+.+.. .+++|||+|.+.++|.+|++.|+|..+.|+.|.|.++.+...
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~-~kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~~~   91 (99)
T 2cpj_A           14 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK-DKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSAS   91 (99)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEET-TTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCCSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEec-CCCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcCCCCC
Confidence            356999999999999999999999999999998874 479999999999999999999999999999999999987543

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

Probab=99.68  E-value=2e-16  Score=107.37  Aligned_cols=78  Identities=21%  Similarity=0.288  Sum_probs=71.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ...+|||+|||..+++++|.++|+.||.|..+.+.     +..+|+|||+|.+.++|..|+..|+|..+.|+.|.|.++.
T Consensus        22 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  101 (106)
T 1p27_B           22 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  101 (106)
T ss_dssp             TBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEeec
Confidence            35789999999999999999999999999999886     3457999999999999999999999999999999999987


Q ss_pred             CCC
Q psy10320        187 PRG  189 (262)
Q Consensus       187 ~~~  189 (262)
                      ++.
T Consensus       102 ~~~  104 (106)
T 1p27_B          102 VRG  104 (106)
T ss_dssp             ESS
T ss_pred             CCC
Confidence            653

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

Probab=99.68  E-value=2e-16  Score=108.76  Aligned_cols=76  Identities=24%  Similarity=0.331  Sum_probs=70.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..++|||+|||..+++++|+++|..||.|..+.+.     +..+|+|||+|.+.++|.+|+ .|+|..|.|+.|.|.++.
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~  102 (114)
T 2cq4_A           24 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQ  102 (114)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEecC
Confidence            35699999999999999999999999999999887     456899999999999999999 999999999999999876


Q ss_pred             CC
Q psy10320        187 PR  188 (262)
Q Consensus       187 ~~  188 (262)
                      ++
T Consensus       103 ~~  104 (114)
T 2cq4_A          103 AE  104 (114)
T ss_dssp             HH
T ss_pred             CC
Confidence            54

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X

Probab=99.68  E-value=3e-16  Score=114.02  Aligned_cols=79  Identities=22%  Similarity=0.197  Sum_probs=72.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..++|||+|||..+++++|+++|+.||.|..|.+.     +..+++|||+|.+.++|.+||..|++..|.|+.|.|.++.
T Consensus        38 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  117 (156)
T 1h2v_Z           38 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDA  117 (156)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            46799999999999999999999999999999886     3357899999999999999999999999999999999998


Q ss_pred             CCCC
Q psy10320        187 PRGG  190 (262)
Q Consensus       187 ~~~~  190 (262)
                      +...
T Consensus       118 ~~~~  121 (156)
T 1h2v_Z          118 GFKE  121 (156)
T ss_dssp             CCCT
T ss_pred             CCCC
Confidence            7544

>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=99.68  E-value=1.4e-16  Score=105.47  Aligned_cols=77  Identities=17%  Similarity=0.218  Sum_probs=68.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCc-eEEEecccCCCceEEEEecCHHHHHHHHHHhCC-cccCCceEEEeecCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGE-VCYADAHKRHRNEGVVEFESSSDMKKALDKLDN-AELNGRRIRLIEDKPRG  189 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~-i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g-~~~~g~~~~v~~~~~~~  189 (262)
                      ..++|||+|||..+++++|+++|++||. |..+.+.  .+++|||+|.+.++|..|+..||| ..++|+.|.|.++.++.
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~--~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~~~   84 (93)
T 2cqh_A            7 GMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL--KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKK   84 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE--ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc--CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEccCcc
Confidence            3569999999999999999999999998 5555443  579999999999999999999999 99999999999998764


Q ss_pred             C
Q psy10320        190 G  190 (262)
Q Consensus       190 ~  190 (262)
                      .
T Consensus        85 ~   85 (93)
T 2cqh_A           85 L   85 (93)
T ss_dssp             C
T ss_pred             c
Confidence            4

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.68  E-value=2.2e-16  Score=109.30  Aligned_cols=79  Identities=19%  Similarity=0.228  Sum_probs=71.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCce-EEEEecCHHHHHHHHHHhCCcccCC--ceEEEeecCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE-GVVEFESSSDMKKALDKLDNAELNG--RRIRLIEDKP  187 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~-~~v~f~~~~~a~~a~~~l~g~~~~g--~~~~v~~~~~  187 (262)
                      .....|||+||++.+++++|.++|++||.|..+.+....+++ |||+|.+.++|..|++.|||..+.|  +.|+|.++++
T Consensus        26 s~VL~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak~  105 (130)
T 3zzy_A           26 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKL  105 (130)
T ss_dssp             CSEEEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECSC
T ss_pred             CceEEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCCCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecCC
Confidence            334578899999999999999999999999999888766787 9999999999999999999999998  8999999987


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      ..
T Consensus       106 ~~  107 (130)
T 3zzy_A          106 TS  107 (130)
T ss_dssp             SS
T ss_pred             Cc
Confidence            53

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

Probab=99.68  E-value=2.2e-16  Score=121.02  Aligned_cols=73  Identities=25%  Similarity=0.497  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|..|+..|||..|+|+.|.|.++..
T Consensus       125 ~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~V~~a~~  204 (216)
T 2qfj_A          125 FNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVT  204 (216)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCBCSSSBCEEEECSS
T ss_pred             CcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHccCCEeCCcEEEEEEecC
Confidence            4799999999999999999999999999999983        68999999999999999999999999999999999986


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus       205 ~  205 (216)
T 2qfj_A          205 P  205 (216)
T ss_dssp             C
T ss_pred             C
Confidence            5

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

Probab=99.68  E-value=2.1e-16  Score=105.82  Aligned_cols=79  Identities=18%  Similarity=0.191  Sum_probs=71.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceE-EEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCce----EE
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVC-YADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRR----IR  181 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~-~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~----~~  181 (262)
                      +..+|||+|||..+++++|+++|++||.|. .+.+..     ..+++|||+|.+.++|..|++.|||..+.|+.    |.
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l~   87 (99)
T 2div_A            8 MAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRFK   87 (99)
T ss_dssp             SSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEECC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeEE
Confidence            467999999999999999999999999998 888763     35689999999999999999999999999999    99


Q ss_pred             EeecCCCCC
Q psy10320        182 LIEDKPRGG  190 (262)
Q Consensus       182 v~~~~~~~~  190 (262)
                      |.++.+...
T Consensus        88 v~~a~~~~~   96 (99)
T 2div_A           88 LNYATYSGP   96 (99)
T ss_dssp             EEETTCCSS
T ss_pred             EeecCCCCC
Confidence            999876543

>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=99.68  E-value=1.6e-16  Score=117.44  Aligned_cols=70  Identities=29%  Similarity=0.584  Sum_probs=66.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|+|||+|.+.++|..|+..|||..|+|+.|.|.++
T Consensus        94 ~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~A  171 (172)
T 2g4b_A           94 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA  171 (172)
T ss_dssp             TTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEECCeEEEEEeC
Confidence            4799999999999999999999999999999983        589999999999999999999999999999999987

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

Probab=99.67  E-value=1.5e-16  Score=105.83  Aligned_cols=76  Identities=18%  Similarity=0.308  Sum_probs=70.3

Q ss_pred             CCceEEEcCCCC-CCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        112 SDHRLIVENLSS-RVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       112 ~~~~l~v~nl~~-~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      +.++|||+|||. .+++++|+++|++||.|..+.+.   +++|||+|.+.++|..|+..|+|..+.|+.|.|..+.+...
T Consensus         9 ~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~~~   85 (96)
T 2kvi_A            9 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK---NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSSSNAR   85 (96)
T ss_dssp             CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE---TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEEECCCC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe---CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEcCcCCC
Confidence            467999999998 99999999999999999999884   79999999999999999999999999999999999876543

>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=99.67  E-value=4.4e-16  Score=106.42  Aligned_cols=78  Identities=15%  Similarity=0.275  Sum_probs=71.4

Q ss_pred             CCceEEEcCCCCCCCHHHHH---HHhhcCCceEEEeccc--------CCCceEEEEecCHHHHHHHHHHhCCcccCCceE
Q psy10320        112 SDHRLIVENLSSRVSWQDLK---DFMRQVGEVCYADAHK--------RHRNEGVVEFESSSDMKKALDKLDNAELNGRRI  180 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~---~~f~~~g~i~~~~~~~--------~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~  180 (262)
                      ..++|||+|||..+++++|.   ++|.+||.|..+.+..        .++|+|||+|.+.++|.+|++.|||..++|+.|
T Consensus        14 ~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l   93 (111)
T 2cpi_A           14 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL   93 (111)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEEE
Confidence            35699999999999999999   9999999999998873        234899999999999999999999999999999


Q ss_pred             EEeecCCCC
Q psy10320        181 RLIEDKPRG  189 (262)
Q Consensus       181 ~v~~~~~~~  189 (262)
                      .|.++.++.
T Consensus        94 ~V~~a~~k~  102 (111)
T 2cpi_A           94 KASLGTTKY  102 (111)
T ss_dssp             EEESCCCCS
T ss_pred             EEEeccccc
Confidence            999998775

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

Probab=99.67  E-value=6.3e-16  Score=104.07  Aligned_cols=81  Identities=25%  Similarity=0.413  Sum_probs=70.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc--cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH--KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .+.++|||+|||..+++++|+++|+.|+.|..+...  +..+++|||+|.+.++|..|+..|+|..|.|+.|.|.++.++
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~~   92 (102)
T 2fc8_A           13 QPSKTLFVKGLSEDTTEETLKESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAKPK   92 (102)
T ss_dssp             CCCSSEEEECCCTTCCHHHHHHTSTTCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCC
T ss_pred             CCCCEEEEeCCCCccCHHHHHHHhcCCeEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCC
Confidence            346799999999999999999999998765554432  455789999999999999999999999999999999999876


Q ss_pred             CCC
Q psy10320        189 GGG  191 (262)
Q Consensus       189 ~~~  191 (262)
                      ...
T Consensus        93 ~~~   95 (102)
T 2fc8_A           93 GEG   95 (102)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            553

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

Probab=99.67  E-value=2.1e-15  Score=103.93  Aligned_cols=78  Identities=14%  Similarity=0.223  Sum_probs=70.6

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+..     ..+++|||+|.+.++|.+|++.+++ .+.|+.|.|.++
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~a   93 (116)
T 2cqd_A           15 TTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLA   93 (116)
T ss_dssp             CSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEEc
Confidence            3467999999999999999999999999999998873     3578999999999999999999998 899999999998


Q ss_pred             CCCC
Q psy10320        186 KPRG  189 (262)
Q Consensus       186 ~~~~  189 (262)
                      .+..
T Consensus        94 ~~~~   97 (116)
T 2cqd_A           94 YLGA   97 (116)
T ss_dssp             TTTC
T ss_pred             ccCC
Confidence            7643

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.67  E-value=2.6e-16  Score=104.52  Aligned_cols=77  Identities=25%  Similarity=0.349  Sum_probs=70.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+..    ..+++|||+|.+.++|.+|+..|+|..+.|+.|.|.+++
T Consensus        14 ~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   93 (95)
T 2ywk_A           14 EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGPS   93 (95)
T ss_dssp             TGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEcC
Confidence            3467999999999999999999999999999998873    347899999999999999999999999999999998875


Q ss_pred             C
Q psy10320        187 P  187 (262)
Q Consensus       187 ~  187 (262)
                      .
T Consensus        94 ~   94 (95)
T 2ywk_A           94 S   94 (95)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.67  E-value=1.3e-16  Score=106.16  Aligned_cols=81  Identities=26%  Similarity=0.466  Sum_probs=72.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      ....+|||+|||..+++++|+++|..||.|..+...+..+|+|||+|.+.++|..|+..|+|..+.|+.|.|.++.++..
T Consensus        14 ~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~   93 (96)
T 1fjc_A           14 RAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKGG   93 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSSCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcCCCCC
Confidence            34679999999999999999999999998877744466789999999999999999999999999999999999987654


Q ss_pred             C
Q psy10320        191 G  191 (262)
Q Consensus       191 ~  191 (262)
                      .
T Consensus        94 ~   94 (96)
T 1fjc_A           94 T   94 (96)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.67  E-value=8.1e-17  Score=107.92  Aligned_cols=75  Identities=21%  Similarity=0.257  Sum_probs=69.9

Q ss_pred             CceEEEcCCCC------CCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCC-ceE
Q psy10320        113 DHRLIVENLSS------RVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNG-RRI  180 (262)
Q Consensus       113 ~~~l~v~nl~~------~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g-~~~  180 (262)
                      .++|||+|||.      .+++++|.++|++||.|..+.+.     +.++|+|||+|.+.++|.+|+..|||..+.| +.|
T Consensus         6 ~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~l   85 (100)
T 3ns6_A            6 DQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRL   85 (100)
T ss_dssp             GGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSCBC
T ss_pred             CcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCeEE
Confidence            56999999999      99999999999999999999887     4568999999999999999999999999999 999


Q ss_pred             EEeecCC
Q psy10320        181 RLIEDKP  187 (262)
Q Consensus       181 ~v~~~~~  187 (262)
                      .|..+.+
T Consensus        86 ~V~~a~~   92 (100)
T 3ns6_A           86 FLYTMKD   92 (100)
T ss_dssp             EEEESHH
T ss_pred             EEEECch
Confidence            9988764

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.67  E-value=3.2e-16  Score=104.52  Aligned_cols=79  Identities=19%  Similarity=0.353  Sum_probs=72.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHH----HHhhcCCceEEEecc--cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        111 RSDHRLIVENLSSRVSWQDLK----DFMRQVGEVCYADAH--KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~----~~f~~~g~i~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      .+..+|||+|||..+++++|+    ++|++||.|..+.+.  +..+|+|||+|.+.++|..|+..|+|..+.|+.|.|.+
T Consensus         6 ~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   85 (97)
T 1nu4_A            6 RPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY   85 (97)
T ss_dssp             CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcCCCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            346799999999999999999    999999999999886  35679999999999999999999999999999999999


Q ss_pred             cCCCC
Q psy10320        185 DKPRG  189 (262)
Q Consensus       185 ~~~~~  189 (262)
                      +.+..
T Consensus        86 a~~~~   90 (97)
T 1nu4_A           86 AKTDS   90 (97)
T ss_dssp             CSSCC
T ss_pred             ccCCC
Confidence            87754

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=99.67  E-value=3.8e-16  Score=106.14  Aligned_cols=78  Identities=26%  Similarity=0.380  Sum_probs=70.7

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       109 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      +..+..+|||+|||..+++++|+++|..||.|..+.+.    +..+++|||+|.+.++|.+|+..|+|..+.|+.|.|.+
T Consensus        25 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~  104 (107)
T 3ulh_A           25 GVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQL  104 (107)
T ss_dssp             CCCCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            34457799999999999999999999999999998887    34578999999999999999999999999999999988


Q ss_pred             cC
Q psy10320        185 DK  186 (262)
Q Consensus       185 ~~  186 (262)
                      +.
T Consensus       105 a~  106 (107)
T 3ulh_A          105 VT  106 (107)
T ss_dssp             EC
T ss_pred             eC
Confidence            64

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

Probab=99.67  E-value=2.2e-16  Score=106.08  Aligned_cols=76  Identities=14%  Similarity=0.174  Sum_probs=70.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ..++|||+|||..+++++|+++|+.||.|..+.+. ..+++|||+|.+.++|..|+..|+|..++|+.|.|.+++++
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~-~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~  101 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHY-PEKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGKER  101 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEE-TTTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCCCC
T ss_pred             CCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEe-cCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEeccCC
Confidence            35799999999999999999999999999999887 46899999999999999999999999999999999988753

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.67  E-value=4.8e-16  Score=101.03  Aligned_cols=75  Identities=20%  Similarity=0.333  Sum_probs=69.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHh-CCcccCCceEEEeecC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL-DNAELNGRRIRLIEDK  186 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l-~g~~~~g~~~~v~~~~  186 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+.. .+++|||+|.+.++|..|+..| +|..+.|+.|.|.+++
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~-~kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~ak   85 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQ-RQQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWGR   85 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEG-GGTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEECC
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEEC-CCCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEecC
Confidence            3457999999999999999999999999999998875 4799999999999999999999 9999999999998864

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.66  E-value=2.5e-16  Score=105.29  Aligned_cols=77  Identities=19%  Similarity=0.267  Sum_probs=68.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..++|||+|||..+++++|+++|..||.|..+.+.     +..+++|||+|.+.++|.+|++.|+|..+.|+.|.|..+.
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~   93 (98)
T 2cqp_A           14 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGS   93 (98)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcC
Confidence            35799999999999999999999999988644333     3467999999999999999999999999999999999986


Q ss_pred             CC
Q psy10320        187 PR  188 (262)
Q Consensus       187 ~~  188 (262)
                      ..
T Consensus        94 ~~   95 (98)
T 2cqp_A           94 GP   95 (98)
T ss_dssp             CS
T ss_pred             CC
Confidence            54

>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=99.66  E-value=5.9e-17  Score=106.48  Aligned_cols=76  Identities=20%  Similarity=0.245  Sum_probs=64.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCC--ceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVG--EVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g--~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      .+|||+|||..+++++|+++|+.||  .|..+.+.     +.++|+|||+|.+.++|.+|++.|||..+.|+.|.|..+.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~   81 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSN   81 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC-
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECC
Confidence            3799999999999999999999999  88888775     3567899999999999999999999999999999999887


Q ss_pred             CCC
Q psy10320        187 PRG  189 (262)
Q Consensus       187 ~~~  189 (262)
                      +..
T Consensus        82 ~~~   84 (90)
T 3p5t_L           82 KLE   84 (90)
T ss_dssp             ---
T ss_pred             CCc
Confidence            653

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

Probab=99.66  E-value=2.5e-15  Score=104.78  Aligned_cols=81  Identities=23%  Similarity=0.318  Sum_probs=73.2

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       109 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ...+.++|||+|||..+++++|+++|+.||.|..+.+..    ..+|+|||+|.+.++|..|+..|+|..+.|+.|.|.+
T Consensus        31 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  110 (124)
T 2kt5_A           31 GVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQL  110 (124)
T ss_dssp             CCSSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            445578999999999999999999999999999888863    4689999999999999999999999999999999999


Q ss_pred             cCCCC
Q psy10320        185 DKPRG  189 (262)
Q Consensus       185 ~~~~~  189 (262)
                      +.+..
T Consensus       111 a~~~~  115 (124)
T 2kt5_A          111 VASQI  115 (124)
T ss_dssp             ECCTT
T ss_pred             eCCCC
Confidence            87643

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.66  E-value=5.5e-16  Score=104.92  Aligned_cols=80  Identities=26%  Similarity=0.345  Sum_probs=71.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|+++|.+||.|..+.+..     ..+++|||+|.+.++|.+|+.. ++..|.|+.|.|.++
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~~a   92 (105)
T 2dh8_A           14 DEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPKPC   92 (105)
T ss_dssp             SSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCCCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEEc
Confidence            3467999999999999999999999999999998863     3468999999999999999998 999999999999998


Q ss_pred             CCCCCC
Q psy10320        186 KPRGGG  191 (262)
Q Consensus       186 ~~~~~~  191 (262)
                      .++...
T Consensus        93 ~~~~~~   98 (105)
T 2dh8_A           93 TPRGMQ   98 (105)
T ss_dssp             CCSSCC
T ss_pred             cCCCCC
Confidence            876543

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B

Probab=99.66  E-value=6.1e-16  Score=106.49  Aligned_cols=78  Identities=18%  Similarity=0.299  Sum_probs=71.6

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc--cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH--KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .+..+|||+|||..+++++|.++|+.||.|..+.+.  +..+|+|||+|.+.++|..|+..|||..+.|+.|.|.++.+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~~   85 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYNAN   85 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECCHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecCC
Confidence            346799999999999999999999999999999886  456899999999999999999999999999999999998754

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.66  E-value=5.5e-16  Score=111.36  Aligned_cols=79  Identities=19%  Similarity=0.241  Sum_probs=70.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccC-CCceEEEEecCHHHHHHHHHHhCCcccCC--ceEEEeecCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR-HRNEGVVEFESSSDMKKALDKLDNAELNG--RRIRLIEDKP  187 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~-~~~~~~v~f~~~~~a~~a~~~l~g~~~~g--~~~~v~~~~~  187 (262)
                      .....|||+||++.+++++|+++|++||.|..+.+... .+++|||+|.+.++|..|++.|||..|.|  +.|+|.++++
T Consensus        44 s~vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~  123 (164)
T 1sjr_A           44 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKL  123 (164)
T ss_dssp             CCEEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESSSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSS
T ss_pred             CceEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecC
Confidence            33567999999999999999999999999999998743 46799999999999999999999999966  9999999987


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      +.
T Consensus       124 ~~  125 (164)
T 1sjr_A          124 TS  125 (164)
T ss_dssp             SS
T ss_pred             Cc
Confidence            63

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.66  E-value=3.7e-16  Score=118.15  Aligned_cols=73  Identities=27%  Similarity=0.525  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|..|+..|||..|+|+.|.|.++.+
T Consensus       114 ~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~  193 (198)
T 2yh0_A          114 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASV  193 (198)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEEEESCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            4799999999999999999999999999999983        68999999999999999999999999999999999986


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus       194 ~  194 (198)
T 2yh0_A          194 G  194 (198)
T ss_dssp             C
T ss_pred             C
Confidence            5

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.66  E-value=2.7e-16  Score=105.39  Aligned_cols=77  Identities=25%  Similarity=0.371  Sum_probs=68.0

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc------CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK------RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~------~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      ....++|||+|||..+++++|+++|+.|| |..+.+..      ..+|+|||+|.+.++|..|+ .|+|..++|+.|.|.
T Consensus        16 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~   93 (100)
T 2j76_E           16 KSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVD   93 (100)
T ss_dssp             ----CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEE
Confidence            44467999999999999999999999999 99998863      34899999999999999999 899999999999999


Q ss_pred             ecCCC
Q psy10320        184 EDKPR  188 (262)
Q Consensus       184 ~~~~~  188 (262)
                      .+.++
T Consensus        94 ~a~~~   98 (100)
T 2j76_E           94 VADQA   98 (100)
T ss_dssp             ECCCS
T ss_pred             eccCC
Confidence            98765

>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=99.66  E-value=1.5e-16  Score=116.99  Aligned_cols=72  Identities=25%  Similarity=0.487  Sum_probs=67.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|.+|++ +++..|.|+.|.|.++.+
T Consensus        87 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V~~a~p  165 (167)
T 2cjk_A           87 TGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEIKRAEP  165 (167)
T ss_dssp             CEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHH-CSEECSSSSCEEEEECCC
T ss_pred             CCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHh-CCCEEeCCeEEEEeecCC
Confidence            4689999999999999999999999999999983        5799999999999999996 899999999999999976


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      +
T Consensus       166 k  166 (167)
T 2cjk_A          166 R  166 (167)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.66  E-value=3e-15  Score=99.72  Aligned_cols=76  Identities=13%  Similarity=0.184  Sum_probs=69.6

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      ..++|||+|+  .+++++|+++|++||.|..+.+. ..+++|||+|.+.++|.+|+..|+|..+.|+.|.|.++.++..
T Consensus        14 ~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~-~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~~~~~   89 (97)
T 1x5p_A           14 KGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD-PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQPM   89 (97)
T ss_dssp             CCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEE-TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCSSCCC
T ss_pred             CCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEec-CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCCCCC
Confidence            4679999996  89999999999999999999884 5789999999999999999999999999999999999977644

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A

Probab=99.66  E-value=7.3e-16  Score=101.05  Aligned_cols=75  Identities=19%  Similarity=0.358  Sum_probs=69.0

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .++|||+|||..+++++|+++|+.||.|..+.+.     +..+|+|||+|.+.++|.+|+ .|+|..+.|+.|.|..+++
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a~~   84 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPKRT   84 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEETTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEccC
Confidence            4589999999999999999999999999999876     345889999999999999999 9999999999999999876


Q ss_pred             C
Q psy10320        188 R  188 (262)
Q Consensus       188 ~  188 (262)
                      .
T Consensus        85 ~   85 (89)
T 3ucg_A           85 N   85 (89)
T ss_dssp             T
T ss_pred             C
Confidence            4

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

Probab=99.66  E-value=9.7e-16  Score=103.60  Aligned_cols=76  Identities=13%  Similarity=0.155  Sum_probs=69.5

Q ss_pred             CceEEEcCCCCCC------CHHHHHHHhhcCCceEEEecc---cCCCceEEEEecCHHHHHHHHHHhCCcccCCc-eEEE
Q psy10320        113 DHRLIVENLSSRV------SWQDLKDFMRQVGEVCYADAH---KRHRNEGVVEFESSSDMKKALDKLDNAELNGR-RIRL  182 (262)
Q Consensus       113 ~~~l~v~nl~~~~------~~~~l~~~f~~~g~i~~~~~~---~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~-~~~v  182 (262)
                      .++|||+|||..+      ++++|.++|++||.|..+.+.   +.++|+|||+|.+.++|..|+..|||..+.|+ .|.|
T Consensus        15 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l~V   94 (105)
T 2nlw_A           15 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   94 (105)
T ss_dssp             CSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCEEEE
T ss_pred             CCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCceEEE
Confidence            5699999999999      789999999999999999887   34689999999999999999999999999998 9999


Q ss_pred             eecCCC
Q psy10320        183 IEDKPR  188 (262)
Q Consensus       183 ~~~~~~  188 (262)
                      ..+...
T Consensus        95 ~~a~~~  100 (105)
T 2nlw_A           95 NLFTDF  100 (105)
T ss_dssp             ECSCCC
T ss_pred             EEcchH
Confidence            887643

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.65  E-value=6.9e-16  Score=106.40  Aligned_cols=78  Identities=22%  Similarity=0.332  Sum_probs=70.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .++|||+|||..+++++|+++|..||.|..+.+.     +..+|+|||+|.+.++|..||.. ++..|.|+.|.|.++.+
T Consensus        27 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a~~  105 (116)
T 1x4b_A           27 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRAVA  105 (116)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECCSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEECCC
Confidence            4799999999999999999999999999988876     34578999999999999999987 99999999999999987


Q ss_pred             CCCC
Q psy10320        188 RGGG  191 (262)
Q Consensus       188 ~~~~  191 (262)
                      +...
T Consensus       106 ~~~~  109 (116)
T 1x4b_A          106 REES  109 (116)
T ss_dssp             CCCC
T ss_pred             CccC
Confidence            7543

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

Probab=99.65  E-value=8e-16  Score=101.30  Aligned_cols=78  Identities=15%  Similarity=0.254  Sum_probs=69.7

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .....+|||+|||..+++++|+++|+.| .|..+.+.    +..+|+|||+|.+.++|..|+. |+|..++|+.|.|..+
T Consensus         7 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a   84 (91)
T 2dgw_A            7 GTTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFRE   84 (91)
T ss_dssp             CCCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEE
T ss_pred             CCCccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEEC
Confidence            3446799999999999999999999999 88888776    3457899999999999999999 9999999999999998


Q ss_pred             CCCC
Q psy10320        186 KPRG  189 (262)
Q Consensus       186 ~~~~  189 (262)
                      .++.
T Consensus        85 ~~~~   88 (91)
T 2dgw_A           85 KSGP   88 (91)
T ss_dssp             SSCC
T ss_pred             CcCC
Confidence            7663

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

Probab=99.65  E-value=6.1e-16  Score=105.61  Aligned_cols=75  Identities=13%  Similarity=0.159  Sum_probs=69.9

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .++|||+|||..+++++|+++|++||.|..+.+.. .+++|||+|.+.++|..|+..|||..+.|+.|.|.++...
T Consensus        10 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~-~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~   84 (111)
T 1whx_A           10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE-GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIG   84 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS-SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC-CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCCC
Confidence            56999999999999999999999999999998874 6799999999999999999999999999999999988653

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=99.65  E-value=3.4e-16  Score=117.38  Aligned_cols=73  Identities=19%  Similarity=0.358  Sum_probs=65.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.       +|||||+|.+.++|+.|+..+ +..|.|+.|.|.+....
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~-~~~~~Gr~l~V~~~~~y  187 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETP-GQKYKETDLLILFKDDY  187 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCT-TCEETTEECEEEETTTC
T ss_pred             cCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhC-CCeECCEEEEEEEhHHH
Confidence            4799999999999999999999999999999884       699999999999999999655 56999999999988765


Q ss_pred             C
Q psy10320         76 D   76 (262)
Q Consensus        76 ~   76 (262)
                      .
T Consensus       188 ~  188 (193)
T 2voo_A          188 F  188 (193)
T ss_dssp             -
T ss_pred             H
Confidence            3

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.65  E-value=9e-16  Score=103.01  Aligned_cols=79  Identities=22%  Similarity=0.340  Sum_probs=68.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ....+|||+|||+.+++++|+++|+.||.+ .+.+.    +.++|+|||+|.+.++|.+||+ +++..++|+.|.|..+.
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~~-~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~~~   90 (102)
T 1wez_A           13 TTGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLNS   90 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCce-EEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEECC
Confidence            345799999999999999999999999965 77665    4457899999999999999994 79999999999999887


Q ss_pred             CCCCC
Q psy10320        187 PRGGG  191 (262)
Q Consensus       187 ~~~~~  191 (262)
                      +....
T Consensus        91 ~~~~~   95 (102)
T 1wez_A           91 TAGTS   95 (102)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            66543

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

Probab=99.65  E-value=6.8e-16  Score=103.84  Aligned_cols=73  Identities=22%  Similarity=0.218  Sum_probs=65.4

Q ss_pred             ccceEEEcCCCC-----CCCHHHHHHHHhcCCceeEEEee---------CcEEEEEeCChhhHHHHHHHhcCcccCCceE
Q psy10320          2 VGTKVYIGGLPY-----GVRERDLEKFVKGYGRIRDVILK---------NGFGFVEFEDYRDADDAVYELNGKSLLGERV   67 (262)
Q Consensus         2 ~~~~l~V~nl~~-----~~t~~~l~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l   67 (262)
                      .+.+|+|.||..     ..++++|+++|++||.|..|.|.         +|+|||+|.++++|.+|+..|||..|+|+.|
T Consensus         7 ~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i   86 (105)
T 2pe8_A            7 PTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVV   86 (105)
T ss_dssp             CCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcEE
Confidence            467999999963     34799999999999999999883         5899999999999999999999999999999


Q ss_pred             EEEEccC
Q psy10320         68 TVEIAKG   74 (262)
Q Consensus        68 ~v~~~~~   74 (262)
                      .|.++..
T Consensus        87 ~v~~a~~   93 (105)
T 2pe8_A           87 KACFYNL   93 (105)
T ss_dssp             EEEECCH
T ss_pred             EEEEcCH
Confidence            9999864

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.65  E-value=8e-16  Score=108.35  Aligned_cols=78  Identities=12%  Similarity=0.214  Sum_probs=69.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEE--Eecc-----cCCCceEEEEecCHHHHHHHHHHhCCc----ccCCce
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCY--ADAH-----KRHRNEGVVEFESSSDMKKALDKLDNA----ELNGRR  179 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~--~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~----~~~g~~  179 (262)
                      ....+|||+|||..+++++|+++|.+||.|..  +.+.     +.++|||||+|.+. +|.+|+..|+|.    .+.|+.
T Consensus        21 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr~   99 (131)
T 2m2b_A           21 NANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGKT   99 (131)
T ss_dssp             CCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCEE
Confidence            34569999999999999999999999999965  6665     45689999999999 999999999999    999999


Q ss_pred             EEEeecCCCC
Q psy10320        180 IRLIEDKPRG  189 (262)
Q Consensus       180 ~~v~~~~~~~  189 (262)
                      |.|.++.+..
T Consensus       100 l~V~~a~~~~  109 (131)
T 2m2b_A          100 INVEFAKGSK  109 (131)
T ss_dssp             CCCEECCCSC
T ss_pred             EEEEECCCCC
Confidence            9999997753

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.65  E-value=3.3e-15  Score=102.63  Aligned_cols=79  Identities=15%  Similarity=0.273  Sum_probs=70.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCccc--------CCc
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAEL--------NGR  178 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~~--------~g~  178 (262)
                      ...++|||+|||..+++++|+++|..||.|..+.+..    ..+++|||+|.+.++|..|+..|||..+        .++
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~  102 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE  102 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCC
Confidence            3457999999999999999999999999999998863    3578999999999999999999999999        577


Q ss_pred             eEEEeecCCCC
Q psy10320        179 RIRLIEDKPRG  189 (262)
Q Consensus       179 ~~~v~~~~~~~  189 (262)
                      .|.|.++.+..
T Consensus       103 ~l~v~~a~p~~  113 (114)
T 1x5o_A          103 PLLCKFSGPSS  113 (114)
T ss_dssp             CBEEEECCCSC
T ss_pred             ceeEEccCCCC
Confidence            89999987653

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

Probab=99.65  E-value=1.4e-15  Score=97.65  Aligned_cols=73  Identities=19%  Similarity=0.282  Sum_probs=65.5

Q ss_pred             Cce-EEEcCCCCCCCHHH----HHHHhhcCC-ceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHR-LIVENLSSRVSWQD----LKDFMRQVG-EVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~-l~v~nl~~~~~~~~----l~~~f~~~g-~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..+ |||+|||..+++++    |.++|.+|| +|..+.     .|+|||.|.+.++|..|++.|+|..+.|+.|+|.+++
T Consensus         8 ~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~Vt-----gG~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A~   82 (96)
T 2diu_A            8 CHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSIT-----GCSAILRFINQDSAERAQKRMENEDVFGNRIIVSFTP   82 (96)
T ss_dssp             SSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECC-----TTCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESSC
T ss_pred             cceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEe-----cCEEEEEECCHHHHHHHHHHhcCCccCCceEEEEecC
Confidence            445 99999999999887    558999995 998883     2999999999999999999999999999999999998


Q ss_pred             CCCC
Q psy10320        187 PRGG  190 (262)
Q Consensus       187 ~~~~  190 (262)
                      .+..
T Consensus        83 ~~sd   86 (96)
T 2diu_A           83 KNRE   86 (96)
T ss_dssp             CSCC
T ss_pred             CCcc
Confidence            7754

>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=99.65  E-value=3.9e-16  Score=115.67  Aligned_cols=73  Identities=21%  Similarity=0.345  Sum_probs=67.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe---eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i---~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..+..   .+|||||+|.+.++|..|+..|||..|.|+.|.|.++.++
T Consensus        99 ~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~~k  174 (175)
T 1fje_B           99 ARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEK  174 (175)
T ss_dssp             GGEEEEESCCSSCCHHHHHHHCTTCSEEEEECSSSSCCSEEEEECSSHHHHHHHHHHHTEEEETTEEEEEEECSSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCeEEEecCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEecCCC
Confidence            479999999999999999999999999988822   3799999999999999999999999999999999999754

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.65  E-value=1.9e-15  Score=101.96  Aligned_cols=77  Identities=21%  Similarity=0.248  Sum_probs=68.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEE-Eecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCY-ADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~-~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||+.+++++|+++|..||.|.. +.+.    +.++|+|||+|.+.++|.+||.. ++..++|+.|.|..+
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v~~~   91 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKK-HKERIGHRYIEIFKS   91 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CcchhCCcEEEEEEC
Confidence            44679999999999999999999999999987 7664    45689999999999999999987 999999999999887


Q ss_pred             CCC
Q psy10320        186 KPR  188 (262)
Q Consensus       186 ~~~  188 (262)
                      .+.
T Consensus        92 ~~~   94 (104)
T 1wg5_A           92 SRA   94 (104)
T ss_dssp             CTT
T ss_pred             CHH
Confidence            654

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

Probab=99.65  E-value=3.2e-16  Score=100.84  Aligned_cols=69  Identities=13%  Similarity=0.214  Sum_probs=63.5

Q ss_pred             ceEEEcCCCCCC------CHHHHHHHhhcCCceEEEecc---cCCCceEEEEecCHHHHHHHHHHhCCcccCCc-eEEE
Q psy10320        114 HRLIVENLSSRV------SWQDLKDFMRQVGEVCYADAH---KRHRNEGVVEFESSSDMKKALDKLDNAELNGR-RIRL  182 (262)
Q Consensus       114 ~~l~v~nl~~~~------~~~~l~~~f~~~g~i~~~~~~---~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~-~~~v  182 (262)
                      ++|||+|||..+      ++++|+++|++||.|..+.+.   +.++|+|||+|.+.++|..|+..|||..+.|+ .|.|
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            489999999999      779999999999999999886   34689999999999999999999999999999 8876

>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=99.64  E-value=6.3e-16  Score=114.45  Aligned_cols=71  Identities=21%  Similarity=0.410  Sum_probs=65.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccC---CceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLL---GERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~---g~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.       +|||||+|.+.++|..|+..|||..+.   ++.|.|.|+
T Consensus        95 ~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~~a  174 (175)
T 3nmr_A           95 DRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVKFA  174 (175)
T ss_dssp             GSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEEEEC
T ss_pred             CCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEEEec
Confidence            5799999999999999999999999999999983       689999999999999999999998766   499999987


Q ss_pred             c
Q psy10320         73 K   73 (262)
Q Consensus        73 ~   73 (262)
                      .
T Consensus       175 d  175 (175)
T 3nmr_A          175 D  175 (175)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.64  E-value=1.3e-15  Score=103.06  Aligned_cols=77  Identities=17%  Similarity=0.178  Sum_probs=68.8

Q ss_pred             CCceEEE--cCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCccc-----CCceEEEee
Q psy10320        112 SDHRLIV--ENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL-----NGRRIRLIE  184 (262)
Q Consensus       112 ~~~~l~v--~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~-----~g~~~~v~~  184 (262)
                      +..+|||  +||+..+++++|+++|++||.|..+.+.. .+|||||+|++.++|.+|++.|||.++     .|..|.|.+
T Consensus        24 pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~-~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~v~~  102 (114)
T 2cq2_A           24 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP-NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNF  102 (114)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT-TCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEE
T ss_pred             CCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeC-CCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEEe
Confidence            3668999  77999999999999999999999998864 479999999999999999999999988     678899988


Q ss_pred             cCCCC
Q psy10320        185 DKPRG  189 (262)
Q Consensus       185 ~~~~~  189 (262)
                      +....
T Consensus       103 a~~~p  107 (114)
T 2cq2_A          103 VEKVQ  107 (114)
T ss_dssp             ESCCC
T ss_pred             cccCc
Confidence            86543

>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=5e-16  Score=117.19  Aligned_cols=75  Identities=25%  Similarity=0.494  Sum_probs=65.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.+.        +|||||+|.+.++|.+|+.. ++..|+|+.|.|.++.+
T Consensus       104 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~-~~~~~~G~~i~v~~a~~  182 (196)
T 1l3k_A          104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ-KYHTVNGHNCEVRKALS  182 (196)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHC-SCCEETTEECEEEECC-
T ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHh-CCcEECCEEEEEEecCC
Confidence            4799999999999999999999999999999883        68999999999999999965 89999999999999987


Q ss_pred             CCcc
Q psy10320         75 IDRS   78 (262)
Q Consensus        75 ~~~~   78 (262)
                      +...
T Consensus       183 k~~~  186 (196)
T 1l3k_A          183 KQEM  186 (196)
T ss_dssp             ----
T ss_pred             hhHh
Confidence            6544

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.64  E-value=2.7e-15  Score=102.21  Aligned_cols=79  Identities=22%  Similarity=0.228  Sum_probs=71.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCc-eEEEecc------cCCCceEEEEecCHHHHHHHHHHhC--CcccCCceEEE
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGE-VCYADAH------KRHRNEGVVEFESSSDMKKALDKLD--NAELNGRRIRL  182 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~-i~~~~~~------~~~~~~~~v~f~~~~~a~~a~~~l~--g~~~~g~~~~v  182 (262)
                      +.++|||+|||..+++++|.++|..||. |..+.+.      +..+|+|||+|.+.++|..|+..|+  +..+.|+.|.|
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V   86 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAV   86 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEE
Confidence            3679999999999999999999999998 9999886      2568999999999999999999996  58999999999


Q ss_pred             eecCCCCC
Q psy10320        183 IEDKPRGG  190 (262)
Q Consensus       183 ~~~~~~~~  190 (262)
                      .++.++..
T Consensus        87 ~~a~~~~~   94 (109)
T 2dis_A           87 DWAEPEID   94 (109)
T ss_dssp             EESCSSCS
T ss_pred             EEcCCCCC
Confidence            99987644

>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=99.64  E-value=1.2e-15  Score=104.37  Aligned_cols=73  Identities=26%  Similarity=0.398  Sum_probs=65.6

Q ss_pred             cceEEEcCCCCCCC-----------HHHHHHHHhcCCceeEEEee----CcEEEEEeCChhhHHHHHHHhcCcccCCceE
Q psy10320          3 GTKVYIGGLPYGVR-----------ERDLEKFVKGYGRIRDVILK----NGFGFVEFEDYRDADDAVYELNGKSLLGERV   67 (262)
Q Consensus         3 ~~~l~V~nl~~~~t-----------~~~l~~~F~~~G~v~~v~i~----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l   67 (262)
                      ..+|+|.||.....           +++|+++|++||.|..|.|.    +|||||+|.+.++|+.|+..|||..|+|+.|
T Consensus        15 s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l   94 (112)
T 2dit_A           15 ERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQI   94 (112)
T ss_dssp             CCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTCEEEEECSCHHHHHHHHHHSTTCEETTEEC
T ss_pred             ceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEEecCCCCEEEEEEECCHHHHHHHHHHcCCCEECCcEE
Confidence            57899999954432           68999999999999999874    7999999999999999999999999999999


Q ss_pred             EEEEccCC
Q psy10320         68 TVEIAKGI   75 (262)
Q Consensus        68 ~v~~~~~~   75 (262)
                      .|.++.+.
T Consensus        95 ~v~~a~~~  102 (112)
T 2dit_A           95 TAQAWDGT  102 (112)
T ss_dssp             EEEECCSC
T ss_pred             EEEEeCCC
Confidence            99998764

>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=99.64  E-value=7.9e-16  Score=119.00  Aligned_cols=73  Identities=16%  Similarity=0.347  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCC-ceeEEEe---eCcEEEEEeCChhhHHHHHHHhcCcccC-CceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYG-RIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLL-GERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G-~v~~v~i---~~g~afV~f~~~~~a~~a~~~l~~~~~~-g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.|| .|..|.+   .+|+|||+|.+.++|..|+..|||..|. |+.|.|.|+.+.
T Consensus       151 ~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~~~  228 (229)
T 2adc_A          151 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKST  228 (229)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSSC
T ss_pred             CCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEECCCcEEEEEECCHHHHHHHHHHHCCCccCCCCeEEEEEecCC
Confidence            57899999999999999999999999 9999999   5799999999999999999999999999 999999998753

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

Probab=99.64  E-value=7.2e-16  Score=103.53  Aligned_cols=73  Identities=14%  Similarity=0.302  Sum_probs=67.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..+|||+|||..+++++|.++|++||.|..+.+.    +.++|+|||+|.+.++|..|+. ++|..++|+.|.|..+.
T Consensus        11 ~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~~~~   87 (103)
T 1s79_A           11 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKD   87 (103)
T ss_dssp             GGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEEHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEch
Confidence            5699999999999999999999999999999887    4568999999999999999998 99999999999997543

>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=99.64  E-value=7.3e-16  Score=113.35  Aligned_cols=70  Identities=26%  Similarity=0.498  Sum_probs=65.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCC--ceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLG--ERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..+.+.        +|+|||+|.+.++|..|+..|||..|.|  +.|.|.++
T Consensus        89 ~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~V~~A  168 (168)
T 1b7f_A           89 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA  168 (168)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEEEEeC
Confidence            5799999999999999999999999999999883        4899999999999999999999999988  99999875

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

Probab=99.64  E-value=2.1e-15  Score=100.28  Aligned_cols=79  Identities=19%  Similarity=0.323  Sum_probs=70.3

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEe-cc-cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYAD-AH-KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~-~~-~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ....++|||+|||..+++++|+++|..||.|..+. +. ....+.|||+|.+.++|..|+..|||..+.|+.|.|.++.+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~   91 (96)
T 2e44_A           12 RQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPD   91 (96)
T ss_dssp             CCSCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSSEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECCC
T ss_pred             CCCCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCc
Confidence            34467999999999999999999999999999994 55 33455699999999999999999999999999999999987


Q ss_pred             C
Q psy10320        188 R  188 (262)
Q Consensus       188 ~  188 (262)
                      +
T Consensus        92 ~   92 (96)
T 2e44_A           92 E   92 (96)
T ss_dssp             C
T ss_pred             c
Confidence            6

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.64  E-value=4.7e-16  Score=108.50  Aligned_cols=78  Identities=21%  Similarity=0.272  Sum_probs=67.5

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEe-c----ccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYAD-A----HKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       109 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~-~----~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      +.....+|||+|||+.+++++|.++|..||.|..+. +    .+..+|+|||+|.+.++|.+||. |||..|+|+.|.|.
T Consensus        21 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~   99 (124)
T 1wel_A           21 PHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVH   99 (124)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEE
Confidence            444567999999999999999999999999875422 2    24568999999999999999999 99999999999998


Q ss_pred             ecCC
Q psy10320        184 EDKP  187 (262)
Q Consensus       184 ~~~~  187 (262)
                      .+.+
T Consensus       100 ~a~~  103 (124)
T 1wel_A          100 PITK  103 (124)
T ss_dssp             EECH
T ss_pred             ECCH
Confidence            8764

>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=99.64  E-value=6.9e-16  Score=123.15  Aligned_cols=71  Identities=23%  Similarity=0.364  Sum_probs=67.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcccC-CceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSLL-GERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~~-g~~l~v~~~~   73 (262)
                      .++|||+|||..+|+++|+++|+.||.|..|.|.   +|||||+|.+.++|..|+..|||..|. |+.|.|.|++
T Consensus       207 ~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~ak  281 (282)
T 3pgw_A          207 NHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHDIAFVEFDNEVQAGAARDALQGFKITQNNAMKISFAK  281 (282)
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecCCCcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEEEEec
Confidence            4789999999999999999999999999999994   499999999999999999999999999 9999999985

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.64  E-value=1.6e-15  Score=103.13  Aligned_cols=79  Identities=27%  Similarity=0.374  Sum_probs=69.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ...++|||+|||..+++++|+++|+.||.|..+.+.     +..+|+|||+|.+.++|..|+..+ +..++|+.|.|..+
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g~~l~V~~a  101 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELDSKTIDPKVA  101 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCCCEEEEEEEc
Confidence            346799999999999999999999999999999886     345899999999999999999976 59999999999998


Q ss_pred             CCCCC
Q psy10320        186 KPRGG  190 (262)
Q Consensus       186 ~~~~~  190 (262)
                      .++..
T Consensus       102 ~~~~~  106 (109)
T 2rs2_A          102 FPRRA  106 (109)
T ss_dssp             CCCCC
T ss_pred             cCCCC
Confidence            87643

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

Probab=99.64  E-value=4.4e-15  Score=100.06  Aligned_cols=78  Identities=23%  Similarity=0.339  Sum_probs=69.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|+++|..||.|..+.+..     ..+|+|||+|.+.++|.+|+.  ++..++|+.|.|..+
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g~~l~v~~a   90 (103)
T 2cqg_A           13 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS--QRHMIDGRWCDCKLP   90 (103)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH--SCEEETTEEEEEECC
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH--cCCeeCCeEEEEEec
Confidence            3467899999999999999999999999999998863     347899999999999999998  578999999999999


Q ss_pred             CCCCC
Q psy10320        186 KPRGG  190 (262)
Q Consensus       186 ~~~~~  190 (262)
                      .++..
T Consensus        91 ~~~~~   95 (103)
T 2cqg_A           91 NSKQS   95 (103)
T ss_dssp             CTTCC
T ss_pred             CCCCc
Confidence            87654

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.64  E-value=2.8e-16  Score=102.11  Aligned_cols=74  Identities=20%  Similarity=0.318  Sum_probs=66.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      +..+|||+|||..+++++|+++|++||.|..+.+.     +..+|+|||+|.+.++|..|+..|||..+.|+.+++...
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~   82 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGP   82 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCC
Confidence            35699999999999999999999999999999876     345899999999999999999999999999999877543

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

Probab=99.64  E-value=1.2e-15  Score=106.44  Aligned_cols=77  Identities=17%  Similarity=0.304  Sum_probs=70.1

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|+++|++||.|..+.+.     +..+|+|||+|.+.++|..|+ .|+|..+.|+.|.|.++.+
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~~  114 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPKRT  114 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEESSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCC
Confidence            4699999999999999999999999999998875     445899999999999999999 7999999999999999876


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      ...
T Consensus       115 ~~~  117 (124)
T 2jwn_A          115 NMP  117 (124)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            543

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

Probab=99.63  E-value=7.8e-16  Score=111.32  Aligned_cols=77  Identities=19%  Similarity=0.244  Sum_probs=69.6

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCC--ceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVG--EVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g--~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ...+|||+|||..+++++|+++|+.||  .|..+.+.     +..+|||||+|.+.++|..||..|+|..|+|+.|.|.+
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~  133 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRP  133 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEE
Confidence            356999999999999999999999999  89999885     45688999999999999999999999999999999998


Q ss_pred             cCCC
Q psy10320        185 DKPR  188 (262)
Q Consensus       185 ~~~~  188 (262)
                      +.+.
T Consensus       134 a~~~  137 (156)
T 3n9u_C          134 ATRQ  137 (156)
T ss_dssp             CCHH
T ss_pred             cCCC
Confidence            8653

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

Probab=99.63  E-value=7e-16  Score=103.64  Aligned_cols=79  Identities=29%  Similarity=0.388  Sum_probs=68.9

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEec----ccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADA----HKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~----~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ...+|||+|||..+++++|+++|..||.|....+    .+..+|+|||+|.+.++|.+|++ |+|..+.|+.|.|..+.+
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a~~   94 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPKG   94 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECCSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEcCC
Confidence            3679999999999999999999999997765212    15678999999999999999998 999999999999999987


Q ss_pred             CCCC
Q psy10320        188 RGGG  191 (262)
Q Consensus       188 ~~~~  191 (262)
                      +...
T Consensus        95 ~~~~   98 (101)
T 1fj7_A           95 RDGT   98 (101)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            6543

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

Probab=99.63  E-value=6.2e-15  Score=105.11  Aligned_cols=75  Identities=28%  Similarity=0.391  Sum_probs=68.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .+..+|||+|||..+++++|+++|++||.|..+.+.     +..+|+|||+|.+.++|.+|++.|+|..+.|+.|.|.++
T Consensus        61 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~A  140 (140)
T 2ku7_A           61 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA  140 (140)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEEC-
T ss_pred             CCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            346799999999999999999999999999999886     346899999999999999999999999999999999764

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.63  E-value=6.8e-16  Score=116.71  Aligned_cols=73  Identities=16%  Similarity=0.347  Sum_probs=68.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCC-ceeEEEe---eCcEEEEEeCChhhHHHHHHHhcCcccC-CceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYG-RIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLL-GERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G-~v~~v~i---~~g~afV~f~~~~~a~~a~~~l~~~~~~-g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.|| .|..|.+   .+|+|||+|.+.++|..|+..|||..|. |+.|.|.|+.+.
T Consensus       120 ~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~~  197 (198)
T 1qm9_A          120 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKST  197 (198)
T ss_dssp             CCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESSTTSSCEEEECSSHHHHHHHHHHHTSSCCSSCCSCCEEEECCC
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCCCeEEEEeeccc
Confidence            57899999999999999999999999 9999999   4799999999999999999999999999 999999998753

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.63  E-value=3.7e-16  Score=103.80  Aligned_cols=74  Identities=20%  Similarity=0.273  Sum_probs=66.6

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..+|||+|||..+++++|+++|++||.|..+.+.     +..+++|||+|.+.++|.+|++.|||..+.|+.|.|..+.
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a~   93 (95)
T 2ek1_A           15 PTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPS   93 (95)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEecc
Confidence            5799999999999999999999999988655443     3567999999999999999999999999999999998865

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

Probab=99.62  E-value=5.1e-15  Score=97.99  Aligned_cols=76  Identities=17%  Similarity=0.253  Sum_probs=65.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      ..+|||+|||..+++++|+++|..||.|..+.+......+|||+|.+.++|.+|+. |+|..++|+.|.|..+.++.
T Consensus         8 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~~~~~~g~~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~a~~~~   83 (94)
T 2e5g_A            8 LRSVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRPREQKE   83 (94)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHGGGTSCEEEEEECSSSCCEEEEEESSHHHHHHHHT-CSCCEETTEECCCBCSCCSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEcCCCCcEEEEEECCHHHHHHHHh-cCCeEECCEEEEEEECCcCC
Confidence            46999999999999999999999999999883322221299999999999999999 99999999999998776543

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.62  E-value=1.5e-15  Score=111.49  Aligned_cols=70  Identities=33%  Similarity=0.673  Sum_probs=64.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCce--EEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGER--VTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~--l~v~~~   72 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..+.+.        +|+|||+|.+.++|..|++.|||..|.|+.  |.|.|+
T Consensus        88 ~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v~~A  167 (167)
T 1fxl_A           88 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA  167 (167)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcCCccCCCccceEEEeC
Confidence            4789999999999999999999999999999883        689999999999999999999999999964  888775

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.62  E-value=2.5e-15  Score=98.02  Aligned_cols=74  Identities=30%  Similarity=0.452  Sum_probs=66.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||..+++++|+++|++||.|..+.+.     +..+|+|||+|.+.++|.+|++ +++..++|+.|.|..+
T Consensus         9 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~v~~A   87 (87)
T 3s7r_A            9 EDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLD-QKEHRLDGRVIDPKKA   87 (87)
T ss_dssp             SCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHH-SSCEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHH-hCCCEECCEEEEEEeC
Confidence            346799999999999999999999999999999886     3457899999999999999996 5888999999999764

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.62  E-value=3.4e-16  Score=110.54  Aligned_cols=77  Identities=21%  Similarity=0.330  Sum_probs=68.3

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ...+|||+|||+++++++|+++|++|| |..+.+.    +.++|+|||+|++.++|.+|| .+++..+.|+.|.|..+.+
T Consensus        45 ~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~a~~  122 (139)
T 2hgn_A           45 TGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLNST  122 (139)
T ss_dssp             CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEECCC
Confidence            356999999999999999999999999 5577776    456899999999999999999 7999999999999988876


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      ...
T Consensus       123 ~~~  125 (139)
T 2hgn_A          123 TGA  125 (139)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            543

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.62  E-value=1.2e-15  Score=103.10  Aligned_cols=77  Identities=21%  Similarity=0.343  Sum_probs=70.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|+++|+.||.|..+.+.     +..+|+|||+|.+.++|..|++.|+|..+.|+.|.|.++.+
T Consensus         8 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   87 (104)
T 1p1t_A            8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAAS   87 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTC
T ss_pred             ccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCCC
Confidence            4689999999999999999999999999888876     23478999999999999999999999999999999999876


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      ..
T Consensus        88 ~~   89 (104)
T 1p1t_A           88 EK   89 (104)
T ss_dssp             TT
T ss_pred             cc
Confidence            54

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

Probab=99.62  E-value=1e-15  Score=96.97  Aligned_cols=70  Identities=29%  Similarity=0.425  Sum_probs=64.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      +|||+|||..+++++|+++|++||.|..+.+.     +.++|+|||+|.+.++|++|++ |+|..++|+.|.|..+
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEeC
Confidence            48999999999999999999999999999886     3457999999999999999997 9999999999998764

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens}

Probab=99.62  E-value=2.1e-15  Score=107.94  Aligned_cols=80  Identities=18%  Similarity=0.241  Sum_probs=70.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEE--------e--cccCCCceEEEEecCHHHHHHHHHHhCCcccCCceE
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA--------D--AHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRI  180 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~--------~--~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~  180 (262)
                      .+.++|||+|||..+++++|.++|..||.|..+        .  ..+..+|+|||+|.+.++|..|+..|||..+.|+.|
T Consensus        43 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l  122 (143)
T 3egn_A           43 EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKPM  122 (143)
T ss_dssp             SCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcEE
Confidence            346799999999999999999999999987542        2  236778999999999999999999999999999999


Q ss_pred             EEeecCCCCC
Q psy10320        181 RLIEDKPRGG  190 (262)
Q Consensus       181 ~v~~~~~~~~  190 (262)
                      .|.++.+...
T Consensus       123 ~V~~a~~~~~  132 (143)
T 3egn_A          123 VVQFARSARP  132 (143)
T ss_dssp             EEEECCCSCC
T ss_pred             EEEECCCCCC
Confidence            9999976543

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus}

Probab=99.62  E-value=3.3e-15  Score=97.66  Aligned_cols=76  Identities=18%  Similarity=0.312  Sum_probs=63.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcc--cCCceEEEeecCC
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAE--LNGRRIRLIEDKP  187 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~--~~g~~~~v~~~~~  187 (262)
                      ..+.++|||+|||+++++++|+++|++||.|..+.+...++|||||+|++.++|.+    +++..  +.|+.|.|..+.+
T Consensus         8 ~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~srGfaFV~F~~~~~A~~----~~~~~~~~~g~~v~v~~a~~   83 (89)
T 3d2w_A            8 HHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQS----LCGEDLIIKGISVHISNAEP   83 (89)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSSCCSEEEEEESCHHHHHH----HTTCEEEETTEEEEEEECC-
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeCCCCEEEEEECCHHHHHH----HcCCCcccCCEEEEEEEcCC
Confidence            33467999999999999999999999999999999998889999999999999883    55655  4589999999877


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      +.
T Consensus        84 k~   85 (89)
T 3d2w_A           84 KH   85 (89)
T ss_dssp             --
T ss_pred             CC
Confidence            54

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

Probab=99.61  E-value=1.3e-15  Score=105.19  Aligned_cols=77  Identities=23%  Similarity=0.294  Sum_probs=68.3

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCc---eEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGE---VCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~---i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      ....++|||+|||+.+++++|+++|+.||.   |..+.+.    +.++|+|||+|.+.++|.+||+ |++..++|+.|.|
T Consensus        14 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V   92 (118)
T 2db1_A           14 GGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK-KDRESMGHRYIEV   92 (118)
T ss_dssp             BCCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCeECCeEEEE
Confidence            444679999999999999999999999998   7776665    4567899999999999999999 9999999999999


Q ss_pred             eecCC
Q psy10320        183 IEDKP  187 (262)
Q Consensus       183 ~~~~~  187 (262)
                      ..+.+
T Consensus        93 ~~a~~   97 (118)
T 2db1_A           93 FKSHR   97 (118)
T ss_dssp             EEECH
T ss_pred             EECCH
Confidence            88754

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

Probab=99.61  E-value=2.4e-15  Score=101.79  Aligned_cols=73  Identities=22%  Similarity=0.272  Sum_probs=66.4

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||+.+++++|+++|+.| .|..+.+.    +.++|+|||+|.+.++|.+|| .+++..++|+.|.|..+.+
T Consensus        16 ~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~a~~   92 (109)
T 2dnn_A           16 DLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPATE   92 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEECCH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCc
Confidence            5699999999999999999999999 78888776    456899999999999999999 6999999999999987754

>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=99.61  E-value=1.9e-15  Score=98.73  Aligned_cols=74  Identities=14%  Similarity=0.337  Sum_probs=68.4

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ..+|||+|||..+++++|+++|++| .|..+.+. ..+|+|||+|.+.++|..|++.|||..+.|+.|.|..+...
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~-~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~   78 (88)
T 1wg1_A            5 SSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD-RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTD   78 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE-GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe-CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcCCC
Confidence            4689999999999999999999999 89888775 67899999999999999999999999999999999988653

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=99.60  E-value=1.2e-15  Score=107.45  Aligned_cols=79  Identities=22%  Similarity=0.292  Sum_probs=69.2

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHHHhhcCCc---eEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceE
Q psy10320        108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGE---VCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRI  180 (262)
Q Consensus       108 ~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~---i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~  180 (262)
                      ++....++|||+|||+.+++++|+++|+.||.   |..+.+.    +.++|+|||+|++.++|.+||+ |++..++|+.|
T Consensus        39 ~~~~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i  117 (136)
T 2hgl_A           39 PEGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMGHRYI  117 (136)
T ss_dssp             SSCCTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESSSSEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEECCEEE
Confidence            34445679999999999999999999999998   6666665    4568899999999999999999 99999999999


Q ss_pred             EEeecCC
Q psy10320        181 RLIEDKP  187 (262)
Q Consensus       181 ~v~~~~~  187 (262)
                      .|..+.+
T Consensus       118 ~V~~a~~  124 (136)
T 2hgl_A          118 EVFKSHR  124 (136)
T ss_dssp             EEEECCH
T ss_pred             EEEECCh
Confidence            9988753

>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=5.2e-15  Score=112.11  Aligned_cols=76  Identities=18%  Similarity=0.267  Sum_probs=71.9

Q ss_pred             CceEEEcCCC-CCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        113 DHRLIVENLS-SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       113 ~~~l~v~nl~-~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .++|||+||| ..+++++|.++|.+||.|..+.+....+|+|||+|.+.++|..|++.|||..+.|+.|.|.+++..
T Consensus         4 ~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~~~   80 (205)
T 3tyt_A            4 SPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQP   80 (205)
T ss_dssp             CSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTTSTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCS
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecCCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccCC
Confidence            5699999999 899999999999999999999998878899999999999999999999999999999999988644

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.60  E-value=2.5e-15  Score=103.10  Aligned_cols=76  Identities=14%  Similarity=0.173  Sum_probs=68.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCce-EEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEV-CYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i-~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ...+|||+|||..+++++|+++|+.||.| ..+.+.    +..+|+|||+|.+.++|.+||.. ++..|.|+.|.|..+.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~a~   92 (114)
T 2cpy_A           14 AKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERL-HRKKLNGREAFVHVVT   92 (114)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEEEC
T ss_pred             CccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEECC
Confidence            35799999999999999999999999999 566665    45789999999999999999986 9999999999998886


Q ss_pred             CC
Q psy10320        187 PR  188 (262)
Q Consensus       187 ~~  188 (262)
                      +.
T Consensus        93 ~~   94 (114)
T 2cpy_A           93 LE   94 (114)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=99.59  E-value=1.5e-15  Score=103.08  Aligned_cols=77  Identities=17%  Similarity=0.227  Sum_probs=68.7

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCc---eEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGE---VCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~---i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      ....++|||+|||+.+++++|+++|..||.   |..+.+.    +.++|+|||+|.+.++|.+||. +++..++|+.|.|
T Consensus         8 ~~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V   86 (107)
T 2lmi_A            8 VDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALE-KHRMYMGQRYVEV   86 (107)
T ss_dssp             CSSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCC
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHH-hCcceeCCeEEEE
Confidence            344679999999999999999999999998   7777776    4568999999999999999999 9999999999999


Q ss_pred             eecCC
Q psy10320        183 IEDKP  187 (262)
Q Consensus       183 ~~~~~  187 (262)
                      ..+.+
T Consensus        87 ~~a~~   91 (107)
T 2lmi_A           87 YEINN   91 (107)
T ss_dssp             EECCH
T ss_pred             EECCH
Confidence            88764

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

Probab=99.59  E-value=3.8e-15  Score=97.35  Aligned_cols=77  Identities=16%  Similarity=0.277  Sum_probs=65.9

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGG  191 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~~  191 (262)
                      .++|||+|||..+++++|+++|++||.|..+.+....+|+|||+|.+.++|++|+.  ....+.|..|.|..+.++...
T Consensus         5 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~~~~--~~~~~~g~~l~v~~a~~~~~~   81 (88)
T 1wf0_A            5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNAEPKHNS   81 (88)
T ss_dssp             CCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSCCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECCCCCCCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecCCCCEEEEEECCHHHHHHHhc--CCceeCCEEEEEEecCCCCCC
Confidence            56999999999999999999999999999999987789999999999999975432  133458999999998876543

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

Probab=99.58  E-value=2e-15  Score=96.08  Aligned_cols=70  Identities=26%  Similarity=0.375  Sum_probs=64.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      +|||+|||..+++++|+++|++||.|..+.+.     +.++|+|||+|.+.++|..|+..++ ..++|+.|.|..+
T Consensus         2 ~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A            2 KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEec
Confidence            79999999999999999999999999888776     3457899999999999999999999 9999999999875

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.58  E-value=8.7e-16  Score=100.91  Aligned_cols=75  Identities=31%  Similarity=0.515  Sum_probs=66.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ++|||+|||..+++++|.++|++||.|..+.+.     +.++|+|||+|.+.+ |..|+..|+|..++|+.|.|..+.+.
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~~   80 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANPK   80 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC---
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCCC
Confidence            379999999999999999999999999998886     455899999999999 99999999999999999999998765


Q ss_pred             C
Q psy10320        189 G  189 (262)
Q Consensus       189 ~  189 (262)
                      .
T Consensus        81 ~   81 (90)
T 2ki2_A           81 K   81 (90)
T ss_dssp             -
T ss_pred             C
Confidence            3

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=99.58  E-value=7.3e-15  Score=118.52  Aligned_cols=71  Identities=17%  Similarity=0.414  Sum_probs=63.3

Q ss_pred             cceEEEcC--CCCCCCHHHHHHHHhcCCceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccC---Cc--eEEEEEcc
Q psy10320          3 GTKVYIGG--LPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLL---GE--RVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~n--l~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~---g~--~l~v~~~~   73 (262)
                      +.+|||+|  |++.+|+++|+++|++||+|..|.|  .+|||||+|.+.++|++|++.|||..+.   |+  .|.|.++.
T Consensus        18 s~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly~~~~~   97 (345)
T 3tht_A           18 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVE   97 (345)
T ss_dssp             CSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCTTCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEECS
T ss_pred             CCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEEEEEee
Confidence            56999999  5789999999999999999999998  5899999999999999999999998773   44  57777774

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

Probab=99.58  E-value=7.5e-15  Score=108.48  Aligned_cols=79  Identities=24%  Similarity=0.343  Sum_probs=71.7

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       109 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ...+.++|||+|||..+++++|+++|++||.|..+.+.    +..+++|||+|.+.++|.+|++.|+|..+.|+.|.|.+
T Consensus        84 ~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~  163 (177)
T 2f3j_A           84 GVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQL  163 (177)
T ss_dssp             SCTTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            34456799999999999999999999999999998886    44679999999999999999999999999999999998


Q ss_pred             cCC
Q psy10320        185 DKP  187 (262)
Q Consensus       185 ~~~  187 (262)
                      +.+
T Consensus       164 a~~  166 (177)
T 2f3j_A          164 VAS  166 (177)
T ss_dssp             ESS
T ss_pred             ecC
Confidence            765

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.57  E-value=9.7e-15  Score=95.20  Aligned_cols=71  Identities=23%  Similarity=0.410  Sum_probs=65.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcC----C-------ceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceE
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQV----G-------EVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRI  180 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~----g-------~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~  180 (262)
                      ...+|||+|||..+++++|+++|++|    |       .|..+.+.. .+++|||+|.+.++|.+|+ .|+|..+.|+.|
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~-~kg~afV~f~~~~~a~~A~-~l~g~~~~g~~l   82 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ-DKNFAFLEFRSVDETTQAM-AFDGIIFQGQSL   82 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECS-SSSEEEEEESSHHHHHHHG-GGTTCEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecC-CCcEEEEEcCCHHHHHHHH-hcCCCEECCeEE
Confidence            35799999999999999999999999    8       899888764 3899999999999999999 999999999999


Q ss_pred             EEee
Q psy10320        181 RLIE  184 (262)
Q Consensus       181 ~v~~  184 (262)
                      .|..
T Consensus        83 ~V~r   86 (87)
T 2hzc_A           83 KIRR   86 (87)
T ss_dssp             EEEC
T ss_pred             EEeC
Confidence            9863

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.57  E-value=4.4e-15  Score=114.31  Aligned_cols=76  Identities=20%  Similarity=0.242  Sum_probs=68.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCC--ceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVG--EVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g--~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ..++|||+||+..+++++|+++|..||  .|..|.|+     +..+|||||+|.+.++|.+||+.|||..|.|+.|.|.+
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~  146 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTP  146 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEE
Confidence            356899999999999999999999999  99999886     34678999999999999999999999999999999998


Q ss_pred             cCC
Q psy10320        185 DKP  187 (262)
Q Consensus       185 ~~~  187 (262)
                      +.+
T Consensus       147 a~~  149 (229)
T 3q2s_C          147 VNK  149 (229)
T ss_dssp             CCH
T ss_pred             CCC
Confidence            754

>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=99.56  E-value=1e-14  Score=98.07  Aligned_cols=73  Identities=19%  Similarity=0.293  Sum_probs=63.9

Q ss_pred             ccceEEEcCC--CCCCC--------HHHHHHHHhcCCceeEEEee----------CcEEEEEeCChhhHHHHHHHhcCcc
Q psy10320          2 VGTKVYIGGL--PYGVR--------ERDLEKFVKGYGRIRDVILK----------NGFGFVEFEDYRDADDAVYELNGKS   61 (262)
Q Consensus         2 ~~~~l~V~nl--~~~~t--------~~~l~~~F~~~G~v~~v~i~----------~g~afV~f~~~~~a~~a~~~l~~~~   61 (262)
                      ++..|.|.||  |..+.        +++|+++|++||.|..|.|.          +|+|||+|.++++|.+|+..|||..
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~   83 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRK   83 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCE
Confidence            3568899998  33443        47899999999999999983          5899999999999999999999999


Q ss_pred             cCCceEEEEEccC
Q psy10320         62 LLGERVTVEIAKG   74 (262)
Q Consensus        62 ~~g~~l~v~~~~~   74 (262)
                      |+|+.|.|.+...
T Consensus        84 f~GR~i~v~~~~~   96 (105)
T 3v4m_A           84 FANRVVVTKYCDP   96 (105)
T ss_dssp             ETTEECEEEEECH
T ss_pred             eCCCEEEEEEeCH
Confidence            9999999998764

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=99.55  E-value=4.8e-15  Score=93.80  Aligned_cols=70  Identities=14%  Similarity=0.277  Sum_probs=63.6

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      +|||+|||..+++++|+++|++||.|..+.+.     +.++|+|||+|.+.++|..|++ +++..+.|+.|.|..+
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~-~~~~~~~g~~l~v~~a   75 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHT-TSSCCBTTBCCCEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHH-hCCCeECCEEEEEEEC
Confidence            58999999999999999999999999999886     4468999999999999999998 5899999999988754

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

Probab=99.32  E-value=3.6e-16  Score=107.79  Aligned_cols=78  Identities=22%  Similarity=0.433  Sum_probs=70.4

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEE--------Eecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCce
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCY--------ADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRR  179 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~--------~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~  179 (262)
                      ..+|||+|||..+++++|+++|++||.|..        +.+.     +..+++|||+|.+.++|..|+..|+|..+.|+.
T Consensus         7 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   86 (116)
T 2lcw_A            7 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGNP   86 (116)
Confidence            568999999999999999999999999987        6555     345789999999999999999999999999999


Q ss_pred             EEEeecCCCCC
Q psy10320        180 IRLIEDKPRGG  190 (262)
Q Consensus       180 ~~v~~~~~~~~  190 (262)
                      |.|..+.++..
T Consensus        87 l~V~~a~~~~~   97 (116)
T 2lcw_A           87 IKVSFATRRAD   97 (116)
Confidence            99999887644

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.55  E-value=4.6e-14  Score=93.67  Aligned_cols=71  Identities=23%  Similarity=0.331  Sum_probs=60.3

Q ss_pred             ceEEEcCCC-------CCCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          4 TKVYIGGLP-------YGVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         4 ~~l~V~nl~-------~~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .+|.|.-.+       +.+|+++|+++|++||+|.+|.|.   +|||||+|.+.++|+.||..+++  +.|+.|.|.++.
T Consensus        11 ~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~v~i~~~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V~~a~   88 (100)
T 2d9o_A           11 PKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLSSKKPGTAVVEFATVKAAELAVQNEVG--LVDNPLKISWLE   88 (100)
T ss_dssp             CEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEEEEEESSSSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEEECSS
T ss_pred             ceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEEEEEccCCCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEEEEcc
Confidence            456665543       568999999999999999999994   89999999999999999987554  679999999987


Q ss_pred             CCC
Q psy10320         74 GID   76 (262)
Q Consensus        74 ~~~   76 (262)
                      ...
T Consensus        89 ~~~   91 (100)
T 2d9o_A           89 GQP   91 (100)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            654

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A

Probab=99.54  E-value=2.4e-14  Score=99.17  Aligned_cols=74  Identities=18%  Similarity=0.247  Sum_probs=64.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceE--EEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVC--YADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~--~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ...+|||+|||+.+++++|+++|+.| .|.  .+.+.    +.++|+|||+|.+.++|.+||+ +++..|+|+.|.|..+
T Consensus        41 ~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~-~~~~~l~gR~I~V~~a  118 (126)
T 2hgm_A           41 NDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALG-KHKERIGHRYIEVFKS  118 (126)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHT-TTTCCBTTBCCCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHH-HCCCEECCEEEEEEEC
Confidence            35689999999999999999999999 565  77766    4568999999999999999998 5789999999999776


Q ss_pred             CC
Q psy10320        186 KP  187 (262)
Q Consensus       186 ~~  187 (262)
                      .+
T Consensus       119 ~~  120 (126)
T 2hgm_A          119 SQ  120 (126)
T ss_dssp             CH
T ss_pred             CH
Confidence            43

>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=99.53  E-value=2.8e-15  Score=100.80  Aligned_cols=63  Identities=25%  Similarity=0.495  Sum_probs=54.3

Q ss_pred             CCCCCCCHHHHHHHH------------hcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEE
Q psy10320         10 GLPYGVRERDLEKFV------------KGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVE   70 (262)
Q Consensus        10 nl~~~~t~~~l~~~F------------~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~   70 (262)
                      |||..+|+++|++.|            ++||+|..|.|.       +|||||+|.++++|++|+..|||..|+|+.|.|.
T Consensus        22 ~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i~v~  101 (104)
T 1jmt_A           22 GLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAE  101 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEE
T ss_pred             CcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEE
Confidence            344445666666555            999999999994       7999999999999999999999999999999998


Q ss_pred             Ec
Q psy10320         71 IA   72 (262)
Q Consensus        71 ~~   72 (262)
                      ++
T Consensus       102 ~s  103 (104)
T 1jmt_A          102 LS  103 (104)
T ss_dssp             EC
T ss_pred             Ec
Confidence            86

>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=99.53  E-value=4.4e-14  Score=96.79  Aligned_cols=72  Identities=22%  Similarity=0.290  Sum_probs=63.6

Q ss_pred             cceEEEcCCCC-----CCCHHHHHHHHhcCCceeEEEee------------CcEEEEEeCChhhHHHHHHHhcCcccCCc
Q psy10320          3 GTKVYIGGLPY-----GVRERDLEKFVKGYGRIRDVILK------------NGFGFVEFEDYRDADDAVYELNGKSLLGE   65 (262)
Q Consensus         3 ~~~l~V~nl~~-----~~t~~~l~~~F~~~G~v~~v~i~------------~g~afV~f~~~~~a~~a~~~l~~~~~~g~   65 (262)
                      +.+|+|.||-.     .--+++|++.|++||+|..|.|.            +|+|||+|.++++|.+|+..|||..|+|+
T Consensus        20 s~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~GR   99 (118)
T 3ue2_A           20 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGR   99 (118)
T ss_dssp             CCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEECCc
Confidence            57899999942     23478999999999999999983            27999999999999999999999999999


Q ss_pred             eEEEEEccC
Q psy10320         66 RVTVEIAKG   74 (262)
Q Consensus        66 ~l~v~~~~~   74 (262)
                      .|.|.++..
T Consensus       100 ~i~v~~~~~  108 (118)
T 3ue2_A          100 KVVAEVYDQ  108 (118)
T ss_dssp             ECEEEEECH
T ss_pred             EEEEEEcCh
Confidence            999999864

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.52  E-value=7.2e-15  Score=101.57  Aligned_cols=75  Identities=17%  Similarity=0.148  Sum_probs=64.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCce----EEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEV----CYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i----~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      ...+|||+|||+.+++++|+++|+.||.|    ..+.+.    +.++|+|||+|.+.++|.+||.. ++..++|+.|.|.
T Consensus        22 ~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V~  100 (123)
T 2dha_A           22 NQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRK-HKDLLGKRYIELF  100 (123)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTT-TTEESSSCEECCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEEE
Confidence            35699999999999999999999999875    345544    45689999999999999999985 9999999999997


Q ss_pred             ecCC
Q psy10320        184 EDKP  187 (262)
Q Consensus       184 ~~~~  187 (262)
                      .+.+
T Consensus       101 ~a~~  104 (123)
T 2dha_A          101 RSTA  104 (123)
T ss_dssp             EECH
T ss_pred             ECCH
Confidence            7653

>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=99.51  E-value=6.4e-14  Score=95.31  Aligned_cols=73  Identities=15%  Similarity=0.140  Sum_probs=62.9

Q ss_pred             ccceEEEcCCCCCC----------CHHHHHHHHhcCCceeEEEee----CcEEEEEeCChhhHHHHHHHhcCcccCCceE
Q psy10320          2 VGTKVYIGGLPYGV----------RERDLEKFVKGYGRIRDVILK----NGFGFVEFEDYRDADDAVYELNGKSLLGERV   67 (262)
Q Consensus         2 ~~~~l~V~nl~~~~----------t~~~l~~~F~~~G~v~~v~i~----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l   67 (262)
                      .+..|.|.||-...          .+++|++.|++||.|.+|.|.    +|+|||+|.+.++|.+|++.|||..|+|+.|
T Consensus         6 ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~~~G~~fV~f~~~e~A~~Ai~~lnG~~f~GR~i   85 (114)
T 3s6e_A            6 ATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSAQGNVYVKCPSIAAAIAAVNALHGRWFAGKMI   85 (114)
T ss_dssp             CCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTCTTCCEEEECSSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            35678899984321          245789999999999999994    6999999999999999999999999999999


Q ss_pred             EEEEccC
Q psy10320         68 TVEIAKG   74 (262)
Q Consensus        68 ~v~~~~~   74 (262)
                      .|.++..
T Consensus        86 ~v~~~~~   92 (114)
T 3s6e_A           86 TAAYVPL   92 (114)
T ss_dssp             EEEEECH
T ss_pred             EEEEEcH
Confidence            9999864

>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=99.51  E-value=4.6e-14  Score=111.23  Aligned_cols=73  Identities=26%  Similarity=0.335  Sum_probs=65.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcC-cccC---CceEEEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNG-KSLL---GERVTVEI   71 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~-~~~~---g~~l~v~~   71 (262)
                      +++|||+|||+.+|+++|+++|..||.|..|.|.       +|||||+|.+.++|..|+..||+ ..+.   ++.|.|.+
T Consensus        96 ~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~  175 (261)
T 3sde_A           96 GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEP  175 (261)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTSCEEEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEE
T ss_pred             CCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEee
Confidence            5799999999999999999999999999999983       78999999999999999999955 4444   89999999


Q ss_pred             ccCC
Q psy10320         72 AKGI   75 (262)
Q Consensus        72 ~~~~   75 (262)
                      +...
T Consensus       176 ~~~~  179 (261)
T 3sde_A          176 MEQF  179 (261)
T ss_dssp             CCCE
T ss_pred             cccc
Confidence            8864

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

Probab=99.50  E-value=1.3e-14  Score=97.54  Aligned_cols=75  Identities=16%  Similarity=0.347  Sum_probs=67.6

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .++|||+|||..+++++|.++|+.||.|..+.+..    ..+|+|||+|.+.++|..|+.  ++..++|+.|.|..+.++
T Consensus         9 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v~~a~~~   86 (102)
T 2xs2_A            9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--SQINFHGKKLKLGPAIRK   86 (102)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT--CCCEETTEECEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh--CCCeECCEEEEEEECCcC
Confidence            56999999999999999999999999999998863    357899999999999999998  999999999998887654


Q ss_pred             C
Q psy10320        189 G  189 (262)
Q Consensus       189 ~  189 (262)
                      .
T Consensus        87 ~   87 (102)
T 2xs2_A           87 Q   87 (102)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.49  E-value=2.9e-13  Score=92.79  Aligned_cols=69  Identities=14%  Similarity=0.250  Sum_probs=57.6

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc--------cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH--------KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~--------~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      .++|||+|||..+++++|+++|++||.|. +.+.        +.++|+|||+|++.++|.+|++.|+  .++|+.+.+..
T Consensus         8 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~--~~~G~~~~~~~   84 (114)
T 2dnl_A            8 SRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACL--EEDGKLYLCVS   84 (114)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSE--EETTEEEEEEC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhh--hcCCcEEEecc
Confidence            56899999999999999999999999998 5554        2568999999999999999999883  25555555443

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

Probab=99.47  E-value=3.3e-13  Score=90.63  Aligned_cols=75  Identities=16%  Similarity=0.138  Sum_probs=65.5

Q ss_pred             CceEEEcCCCC-----CCCHHHHHHHhhcCCceEEEeccc------CCCceEEEEecCHHHHHHHHHHhCCcccCCceEE
Q psy10320        113 DHRLIVENLSS-----RVSWQDLKDFMRQVGEVCYADAHK------RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR  181 (262)
Q Consensus       113 ~~~l~v~nl~~-----~~~~~~l~~~f~~~g~i~~~~~~~------~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~  181 (262)
                      ..+|+|.||..     +-++++|+++|++||.|..+.+..      ..+|+|||+|.+.++|.+|+..|||.+++|+.|.
T Consensus         8 s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i~   87 (105)
T 2pe8_A            8 TKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVK   87 (105)
T ss_dssp             CSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcEEE
Confidence            56899999963     236899999999999999998863      3579999999999999999999999999999999


Q ss_pred             EeecCC
Q psy10320        182 LIEDKP  187 (262)
Q Consensus       182 v~~~~~  187 (262)
                      |.++.+
T Consensus        88 v~~a~~   93 (105)
T 2pe8_A           88 ACFYNL   93 (105)
T ss_dssp             EEECCH
T ss_pred             EEEcCH
Confidence            988753

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.47  E-value=1.2e-13  Score=105.77  Aligned_cols=78  Identities=14%  Similarity=0.236  Sum_probs=69.6

Q ss_pred             CCCceEEEcCCCCCC---------CHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCccc------
Q psy10320        111 RSDHRLIVENLSSRV---------SWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL------  175 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~---------~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~------  175 (262)
                      ....+|||+||+..+         ++++|.++|++||.|..+.++. .+|+|||+|.+.++|+.|+++|+|..|      
T Consensus       132 ~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~-~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~~~  210 (240)
T 3u1l_A          132 KKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE-SKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDK  210 (240)
T ss_dssp             CCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEG-GGTEEEEEESSHHHHHHHHHHHTTCCCCCTTST
T ss_pred             cCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEEC-CCCEEEEEeCCHHHHHHHHHHhCCCEEeccccc
Confidence            346799999999998         7999999999999999998875 579999999999999999999999999      


Q ss_pred             ------CCceEEEeecCCCC
Q psy10320        176 ------NGRRIRLIEDKPRG  189 (262)
Q Consensus       176 ------~g~~~~v~~~~~~~  189 (262)
                            .|+.|.|..+....
T Consensus       211 e~~~~~~gr~L~V~wA~~~p  230 (240)
T 3u1l_A          211 EWDDRREGTGLLVKWANEDP  230 (240)
T ss_dssp             TGGGGGGSCCCEEEECC---
T ss_pred             cccccCCCCEEEEEEccCCC
Confidence                  89999999987643

>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.47  E-value=9.4e-13  Score=89.88  Aligned_cols=78  Identities=15%  Similarity=0.220  Sum_probs=67.3

Q ss_pred             CCceEEEcCCCCCCC-----------HHHHHHHhhcCCceEEEecc-cCCCceEEEEecCHHHHHHHHHHhCCcccCCce
Q psy10320        112 SDHRLIVENLSSRVS-----------WQDLKDFMRQVGEVCYADAH-KRHRNEGVVEFESSSDMKKALDKLDNAELNGRR  179 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~-----------~~~l~~~f~~~g~i~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~  179 (262)
                      +..+|+|.||.....           +++|+++|++||.|..+.+. ...+|+|||+|.+.++|..|+..|||..++|+.
T Consensus        14 ~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~   93 (112)
T 2dit_A           14 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQ   93 (112)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTCEEEEECSCHHHHHHHHHHSTTCEETTEE
T ss_pred             CceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEEecCCCCEEEEEEECCHHHHHHHHHHcCCCEECCcE
Confidence            367999999944332           57999999999999998765 346899999999999999999999999999999


Q ss_pred             EEEeecCCCC
Q psy10320        180 IRLIEDKPRG  189 (262)
Q Consensus       180 ~~v~~~~~~~  189 (262)
                      |.|.++.+..
T Consensus        94 l~v~~a~~~~  103 (112)
T 2dit_A           94 ITAQAWDGTT  103 (112)
T ss_dssp             CEEEECCSCC
T ss_pred             EEEEEeCCCC
Confidence            9999987653

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.46  E-value=8.5e-14  Score=94.62  Aligned_cols=74  Identities=15%  Similarity=0.245  Sum_probs=64.4

Q ss_pred             ceEEEcCC----CCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecC----HHH----HHHHHH--HhCCcc
Q psy10320        114 HRLIVENL----SSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFES----SSD----MKKALD--KLDNAE  174 (262)
Q Consensus       114 ~~l~v~nl----~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~----~~~----a~~a~~--~l~g~~  174 (262)
                      ..|||+||    |+.+++.+|+++|+.||+|..+.+.     +.++|+|||+|.+    +++    |..|+.  .|+|..
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~   82 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCF   82 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCEE
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCe
Confidence            48999999    9999999999999999999999876     5679999999996    333    788888  789999


Q ss_pred             cCCceEEEeecCC
Q psy10320        175 LNGRRIRLIEDKP  187 (262)
Q Consensus       175 ~~g~~~~v~~~~~  187 (262)
                      |+|+.|+|..+..
T Consensus        83 I~Gr~irV~ln~~   95 (136)
T 2j8a_A           83 IMGFKFEVILNKH   95 (136)
T ss_dssp             ETTEEEEEEECCT
T ss_pred             ecCcEEEEEECcc
Confidence            9999999988753

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=99.43  E-value=1.6e-12  Score=97.39  Aligned_cols=74  Identities=14%  Similarity=0.294  Sum_probs=66.0

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|+++|++||.|..+.+.    +..+|+|||+|++.++|..|+..+ +..++|+.|.|.....
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~-~~~~~Gr~l~V~~~~~  186 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETP-GQKYKETDLLILFKDD  186 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCT-TCEETTEECEEEETTT
T ss_pred             cCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhC-CCeECCEEEEEEEhHH
Confidence            4689999999999999999999999999999876    456899999999999999999755 5699999999987654

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.43  E-value=7.6e-13  Score=90.01  Aligned_cols=73  Identities=21%  Similarity=0.264  Sum_probs=65.7

Q ss_pred             ccceEEEcCCCCC-CCHHHHHHHHhcCCceeEEEeeC--cEEEEEeCC-hhhHHHHHHHhc--CcccCCceEEEEEccC
Q psy10320          2 VGTKVYIGGLPYG-VRERDLEKFVKGYGRIRDVILKN--GFGFVEFED-YRDADDAVYELN--GKSLLGERVTVEIAKG   74 (262)
Q Consensus         2 ~~~~l~V~nl~~~-~t~~~l~~~F~~~G~v~~v~i~~--g~afV~f~~-~~~a~~a~~~l~--~~~~~g~~l~v~~~~~   74 (262)
                      .++.|||+||++. ++.++|+++|+.||+|..|.+.+  ..|||.|.+ +++|..|+..|+  +..|.|..+.++....
T Consensus        17 ~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~evL~G   95 (121)
T 1owx_A           17 IGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVLEG   95 (121)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEECCH
T ss_pred             CCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCEEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEEECCC
Confidence            4789999999999 99999999999999999999964  489999999 799999999995  6799999999887653

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.39  E-value=3e-12  Score=84.86  Aligned_cols=66  Identities=17%  Similarity=0.136  Sum_probs=59.2

Q ss_pred             CCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        123 SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       123 ~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      ..+++++|+++|++||.|..+.+.+..+|||||+|++.++|..|+..+++  +.|+.|.|.++.+...
T Consensus        27 ~~~te~~L~~~F~~~G~V~~v~i~~~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V~~a~~~~~   92 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKYGEVLNLVLSSKKPGTAVVEFATVKAAELAVQNEVG--LVDNPLKISWLEGQPQ   92 (100)
T ss_dssp             CSCCHHHHHHHHHTTSCEEEEEEESSSSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEEECSSCCCC
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEccCCCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEEEEccCCCC
Confidence            56899999999999999999999988899999999999999999987544  6799999999877654

>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=99.36  E-value=3.3e-12  Score=85.79  Aligned_cols=74  Identities=20%  Similarity=0.194  Sum_probs=63.7

Q ss_pred             CceEEEcCC--CCCCC--------HHHHHHHhhcCCceEEEeccc-------CCCceEEEEecCHHHHHHHHHHhCCccc
Q psy10320        113 DHRLIVENL--SSRVS--------WQDLKDFMRQVGEVCYADAHK-------RHRNEGVVEFESSSDMKKALDKLDNAEL  175 (262)
Q Consensus       113 ~~~l~v~nl--~~~~~--------~~~l~~~f~~~g~i~~~~~~~-------~~~~~~~v~f~~~~~a~~a~~~l~g~~~  175 (262)
                      ...|.+.|+  |.++.        +++|+++|++||.|..+.+..       ..+|++||+|.+.++|.+|+..|||..+
T Consensus         5 s~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~f   84 (105)
T 3v4m_A            5 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKF   84 (105)
T ss_dssp             CSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCEe
Confidence            568899998  33333        368999999999999999873       3579999999999999999999999999


Q ss_pred             CCceEEEeecC
Q psy10320        176 NGRRIRLIEDK  186 (262)
Q Consensus       176 ~g~~~~v~~~~  186 (262)
                      +|+.|.|.+..
T Consensus        85 ~GR~i~v~~~~   95 (105)
T 3v4m_A           85 ANRVVVTKYCD   95 (105)
T ss_dssp             TTEECEEEEEC
T ss_pred             CCCEEEEEEeC
Confidence            99999998764

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.36  E-value=3.3e-12  Score=81.29  Aligned_cols=72  Identities=19%  Similarity=0.263  Sum_probs=62.5

Q ss_pred             cceEEEcCCC----CCCCH----HHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLP----YGVRE----RDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~----~~~t~----~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..||+|.-++    .+.-.    .+|.+.|..||+|..+++..+.+||+|.+.++|.+|++ |||..+.|+.|+|+++.+
T Consensus         7 d~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d~~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~lkt~   85 (91)
T 2dnr_A            7 GGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVEDKMWVTFLEGSSALNVLS-LNGKELLNRTITIALKSP   85 (91)
T ss_dssp             SCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSSSEEEEESSHHHHHHGGG-GTTCEETTEEEEEEECCC
T ss_pred             CCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecCCEEEEECChHHHHHHHh-cCCeEeCCeEEEEEeCCC
Confidence            4678887665    23444    67899999999999999999999999999999999996 999999999999999876


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        86 d   86 (91)
T 2dnr_A           86 S   86 (91)
T ss_dssp             S
T ss_pred             C
Confidence            4

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=99.31  E-value=9.1e-12  Score=100.54  Aligned_cols=75  Identities=20%  Similarity=0.249  Sum_probs=63.9

Q ss_pred             CCCCceEEEcC--CCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccC---Cc--eEEE
Q psy10320        110 TRSDHRLIVEN--LSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELN---GR--RIRL  182 (262)
Q Consensus       110 ~~~~~~l~v~n--l~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~---g~--~~~v  182 (262)
                      ..+..+|||+|  |+..+++++|+++|++||.|..+.+.. .+|||||+|.+.++|++|++.|||.++.   |+  .+.+
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~-~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly~   93 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP-NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYL   93 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT-TCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEE
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC-CCCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEEE
Confidence            44467999999  578999999999999999999988765 6899999999999999999999999873   44  4555


Q ss_pred             eec
Q psy10320        183 IED  185 (262)
Q Consensus       183 ~~~  185 (262)
                      .+.
T Consensus        94 ~~~   96 (345)
T 3tht_A           94 NFV   96 (345)
T ss_dssp             EEC
T ss_pred             EEe
Confidence            554

>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=99.31  E-value=1.2e-11  Score=83.96  Aligned_cols=76  Identities=14%  Similarity=0.073  Sum_probs=63.6

Q ss_pred             CCCceEEEcCCCCCC----------CHHHHHHHhhcCCceEEEecccC-CCceEEEEecCHHHHHHHHHHhCCcccCCce
Q psy10320        111 RSDHRLIVENLSSRV----------SWQDLKDFMRQVGEVCYADAHKR-HRNEGVVEFESSSDMKKALDKLDNAELNGRR  179 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~----------~~~~l~~~f~~~g~i~~~~~~~~-~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~  179 (262)
                      .+...|.+.|+=...          .+++|+++|++||.|..+.+... .+|++||+|.+.++|.+|+..|||.+++|+.
T Consensus         5 ~ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~~~G~~fV~f~~~e~A~~Ai~~lnG~~f~GR~   84 (114)
T 3s6e_A            5 LATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNSAQGNVYVKCPSIAAAIAAVNALHGRWFAGKM   84 (114)
T ss_dssp             CCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTCTTCCEEEECSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            345678888874322          23678999999999999988743 4799999999999999999999999999999


Q ss_pred             EEEeecC
Q psy10320        180 IRLIEDK  186 (262)
Q Consensus       180 ~~v~~~~  186 (262)
                      |.|.+..
T Consensus        85 i~v~~~~   91 (114)
T 3s6e_A           85 ITAAYVP   91 (114)
T ss_dssp             CEEEEEC
T ss_pred             EEEEEEc
Confidence            9998764

>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=99.30  E-value=8.3e-12  Score=85.44  Aligned_cols=74  Identities=16%  Similarity=0.156  Sum_probs=63.2

Q ss_pred             CceEEEcCCCC--C---CCHHHHHHHhhcCCceEEEecccC---------CCceEEEEecCHHHHHHHHHHhCCcccCCc
Q psy10320        113 DHRLIVENLSS--R---VSWQDLKDFMRQVGEVCYADAHKR---------HRNEGVVEFESSSDMKKALDKLDNAELNGR  178 (262)
Q Consensus       113 ~~~l~v~nl~~--~---~~~~~l~~~f~~~g~i~~~~~~~~---------~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~  178 (262)
                      ..+|++.|+-.  +   -.+++|+++|++||.|..+.+...         .+|++||+|.+.++|.+|+..|||.+++|+
T Consensus        20 s~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~GR   99 (118)
T 3ue2_A           20 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGR   99 (118)
T ss_dssp             CCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEECCc
Confidence            56899999842  2   236899999999999999988732         248999999999999999999999999999


Q ss_pred             eEEEeecC
Q psy10320        179 RIRLIEDK  186 (262)
Q Consensus       179 ~~~v~~~~  186 (262)
                      .|.+.+..
T Consensus       100 ~i~v~~~~  107 (118)
T 3ue2_A          100 KVVAEVYD  107 (118)
T ss_dssp             ECEEEEEC
T ss_pred             EEEEEEcC
Confidence            99998764

>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=99.28  E-value=1.6e-12  Score=87.23  Aligned_cols=68  Identities=25%  Similarity=0.286  Sum_probs=57.5

Q ss_pred             EcCCCCCCCHHHHHHHh------------hcCCceEEEeccc----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEE
Q psy10320        118 VENLSSRVSWQDLKDFM------------RQVGEVCYADAHK----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR  181 (262)
Q Consensus       118 v~nl~~~~~~~~l~~~f------------~~~g~i~~~~~~~----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~  181 (262)
                      +.||+..+++++|++.|            ++||.|..+.+..    ..+|+|||+|.+.++|.+|+..|||..++|+.|.
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i~   99 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIH   99 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECC
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEECCEEEE
Confidence            45666667777666555            9999999999874    3589999999999999999999999999999999


Q ss_pred             Eeec
Q psy10320        182 LIED  185 (262)
Q Consensus       182 v~~~  185 (262)
                      |.++
T Consensus       100 v~~s  103 (104)
T 1jmt_A          100 AELS  103 (104)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            8875

>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=99.19  E-value=3.7e-11  Score=76.80  Aligned_cols=70  Identities=20%  Similarity=0.223  Sum_probs=60.2

Q ss_pred             cceEEEcCCCCC-----CCH----HHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYG-----VRE----RDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~-----~t~----~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      ..||+|.-++..     +-.    .+|.+.|..||+|..+++...-+||+|.+.++|.+||+ |||..+.|+.|.|.+..
T Consensus        15 D~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~~fVtF~d~~sAl~AI~-ldG~~v~Gr~L~V~~k~   93 (95)
T 1ufw_A           15 DATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQMLVTFADSHSALSVLD-VDGMKVKGRAVKISGPS   93 (95)
T ss_dssp             TCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTEEEEECSCSHHHHHHHH-GGGSEETTEEEEEECCC
T ss_pred             CCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCcEEEEEcChHHHHHHHh-cCCeeeCCeEEEEeccC
Confidence            468999877642     223    56889999999999999998889999999999999996 99999999999998653

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.18  E-value=2.3e-10  Score=77.77  Aligned_cols=73  Identities=15%  Similarity=0.247  Sum_probs=64.0

Q ss_pred             CCCCceEEEcCCCCC-CCHHHHHHHhhcCCceEEEecccCCCceEEEEecC-HHHHHHHHHHhC--CcccCCceEEEe
Q psy10320        110 TRSDHRLIVENLSSR-VSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFES-SSDMKKALDKLD--NAELNGRRIRLI  183 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~-~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~-~~~a~~a~~~l~--g~~~~g~~~~v~  183 (262)
                      ..+++.|+|+||+.. ++.++|+++|++||+|.+|++..... .|||.|.+ +.+|..|+..|+  +..|.|..+.+.
T Consensus        15 ~~~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~-tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~e   91 (121)
T 1owx_A           15 EKIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAK-EGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWE   91 (121)
T ss_dssp             CCCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCS-EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEE
T ss_pred             ccCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCC-EEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEE
Confidence            344789999999999 99999999999999999999985543 69999999 899999999995  778899887764

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.17  E-value=1.7e-10  Score=73.39  Aligned_cols=72  Identities=22%  Similarity=0.213  Sum_probs=59.9

Q ss_pred             CceEEEcCCC----CCCCH----HHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        113 DHRLIVENLS----SRVSW----QDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       113 ~~~l~v~nl~----~~~~~----~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      ..+|+|...+    .++.+    .+|.+.|.+||.|..+.+...   .+||+|.+.++|.+|+. |+|..++|+.|+|..
T Consensus         7 d~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d---~~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~l   82 (91)
T 2dnr_A            7 GGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVED---KMWVTFLEGSSALNVLS-LNGKELLNRTITIAL   82 (91)
T ss_dssp             SCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSS---SEEEEESSHHHHHHGGG-GTTCEETTEEEEEEE
T ss_pred             CCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecC---CEEEEECChHHHHHHHh-cCCeEeCCeEEEEEe
Confidence            3467776655    23444    679999999999999998753   39999999999999998 999999999999999


Q ss_pred             cCCC
Q psy10320        185 DKPR  188 (262)
Q Consensus       185 ~~~~  188 (262)
                      +.+.
T Consensus        83 kt~d   86 (91)
T 2dnr_A           83 KSPS   86 (91)
T ss_dssp             CCCS
T ss_pred             CCCC
Confidence            8764

>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=98.97  E-value=2.3e-09  Score=82.17  Aligned_cols=61  Identities=25%  Similarity=0.331  Sum_probs=55.7

Q ss_pred             CCCHHHHHHHHhcCCceeEEEee------------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320         14 GVRERDLEKFVKGYGRIRDVILK------------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus        14 ~~t~~~l~~~F~~~G~v~~v~i~------------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .-.+++|.+.|++||.|..+.|.            +|++||+|.+.++|.+|+..|||.+|.|+.|.+.+...
T Consensus       140 ~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~~  212 (222)
T 3dxb_A          140 DDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQ  212 (222)
T ss_dssp             TTHHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECCH
T ss_pred             HHHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcCH
Confidence            45678899999999999999983            48999999999999999999999999999999999863

>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=98.96  E-value=9.1e-10  Score=70.40  Aligned_cols=70  Identities=19%  Similarity=0.293  Sum_probs=58.5

Q ss_pred             CceEEEcCCCCC-----CCH----HHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        113 DHRLIVENLSSR-----VSW----QDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       113 ~~~l~v~nl~~~-----~~~----~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      ..+|+|..++..     +.+    .+|.+.|.+||.|..+.+....   +||+|.+.++|.+||. |+|.+++|+.|+|.
T Consensus        15 D~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~---~fVtF~d~~sAl~AI~-ldG~~v~Gr~L~V~   90 (95)
T 1ufw_A           15 DATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ---MLVTFADSHSALSVLD-VDGMKVKGRAVKIS   90 (95)
T ss_dssp             TCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE---EEEECSCSHHHHHHHH-GGGSEETTEEEEEE
T ss_pred             CCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc---EEEEEcChHHHHHHHh-cCCeeeCCeEEEEe
Confidence            457888877632     333    5689999999999999887544   9999999999999998 99999999999998


Q ss_pred             ecC
Q psy10320        184 EDK  186 (262)
Q Consensus       184 ~~~  186 (262)
                      ...
T Consensus        91 ~k~   93 (95)
T 1ufw_A           91 GPS   93 (95)
T ss_dssp             CCC
T ss_pred             ccC
Confidence            754

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

Probab=98.84  E-value=4.3e-08  Score=63.43  Aligned_cols=71  Identities=21%  Similarity=0.297  Sum_probs=62.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhc-C----CceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKG-Y----GRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~-~----G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..+|.|.|||+.+.++.|.-+|+. -    |+|..|....+-|+|.|.+.+.|+..+ ......|++..|.|.+...
T Consensus         8 ~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~~~AvItF~d~~va~rVL-~k~~H~L~~~~LsV~P~~~   83 (104)
T 2dhx_A            8 GVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLGCGGVLTFREPADAERVL-AQADHELHGAQLSLRPAPP   83 (104)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEETTEEEEEESSHHHHHHHH-TCSCCBSSSSBCEEEECCC
T ss_pred             ccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcCCcEEEEEcChHHHHHHh-cCCcceecCeEEEEEcCCC
Confidence            579999999999999999999987 2    689999998899999999999999998 6556789999999987554

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.77  E-value=5e-08  Score=63.59  Aligned_cols=71  Identities=20%  Similarity=0.217  Sum_probs=64.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcC-----CceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGY-----GRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~-----G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      ..+|-|-|||-.+++..|+.+++++     |.+..|.+.  -+-|+|+|.+...|-+|.-.|+|..|.|+.|.+.-..
T Consensus        21 ~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~gTv~   98 (117)
T 2l9w_A           21 ETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDFNGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSGTIN   98 (117)
T ss_dssp             TSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTTTEEEEECSCHHHHHHHHHHHSSEEETTEEEEEECHH
T ss_pred             CcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCCCceEEEEccchhhHHHHhhcCCeeecCeEEEecCHH
Confidence            4688999999999999999999999     999999885  5789999999999999998999999999999997543

>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=98.61  E-value=8e-08  Score=73.53  Aligned_cols=62  Identities=18%  Similarity=0.107  Sum_probs=55.2

Q ss_pred             CCHHHHHHHhhcCCceEEEecc----c-----CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        125 VSWQDLKDFMRQVGEVCYADAH----K-----RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       125 ~~~~~l~~~f~~~g~i~~~~~~----~-----~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      -.+++|.+.|.+||.|..+.+.    .     ..+|++||+|.+.++|.+|+..|+|.+++|+.|.+.+..
T Consensus       141 e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~  211 (222)
T 3dxb_A          141 DLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD  211 (222)
T ss_dssp             THHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECC
T ss_pred             HHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcC
Confidence            4567899999999999999886    2     457899999999999999999999999999999998764

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.57  E-value=3.6e-07  Score=59.58  Aligned_cols=70  Identities=20%  Similarity=0.210  Sum_probs=63.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcC-----CceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQV-----GEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~-----g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      ..+|-+-|||..+++..|+.+.+.+     |.+..+.+..+. +-|+|+|.+...|.+|.-+|+|.+|.|+.|++.
T Consensus        21 ~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH-~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~g   95 (117)
T 2l9w_A           21 ETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDF-NGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSG   95 (117)
T ss_dssp             TSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTT-TEEEEECSCHHHHHHHHHHHSSEEETTEEEEEE
T ss_pred             CcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCC-CceEEEEccchhhHHHHhhcCCeeecCeEEEec
Confidence            4589999999999999999999999     999888887654 679999999999999999999999999999873

>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=98.49  E-value=8.4e-07  Score=57.72  Aligned_cols=74  Identities=15%  Similarity=0.157  Sum_probs=62.4

Q ss_pred             ccceEEEcCCCCCC-C----HHHHHHHHhcCCceeEEEeeC--cEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          2 VGTKVYIGGLPYGV-R----ERDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         2 ~~~~l~V~nl~~~~-t----~~~l~~~F~~~G~v~~v~i~~--g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..++|+|.||+..+ .    .+.++++|..|+++.....-+  .-..|.|.++++|.+|-..|++..|.|+.|.|.++..
T Consensus         4 ~pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSFRRirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~YFgq~   83 (104)
T 1wey_A            4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQT   83 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCCC
T ss_pred             CCceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcceEEEEEeCChHHHHHHHHHhccceecCceeEEEecCC
Confidence            36899999998754 2    256789999999888777643  3578999999999999999999999999999999984


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        84 ~   84 (104)
T 1wey_A           84 L   84 (104)
T ss_dssp             S
T ss_pred             C
Confidence            3

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=98.36  E-value=1.7e-06  Score=55.44  Aligned_cols=62  Identities=16%  Similarity=0.173  Sum_probs=53.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee----------CcEEEEEeCChhhHHHHHHHhcCcccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK----------NGFGFVEFEDYRDADDAVYELNGKSLLG   64 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~----------~g~afV~f~~~~~a~~a~~~l~~~~~~g   64 (262)
                      .++|.|.+||+.+||+++.+.+..+..+......          -.-|||.|.+.+++....+.++|..|.+
T Consensus         1 ~~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D   72 (91)
T 1uw4_A            1 LSKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CCEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEc
Confidence            4799999999999999999999998876554442          3579999999999999999999987744

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=98.09  E-value=1.2e-05  Score=51.37  Aligned_cols=53  Identities=17%  Similarity=0.264  Sum_probs=46.6

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELN   58 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~   58 (262)
                      .++| ++|+.+...||.++|..||.|.--.|....|||.|.+++.|..|+..+.
T Consensus        18 Vf~l-~FP~ewKt~DI~~lFs~fggv~I~WidDTsAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           18 VLHV-TFPKEWKTSDLYQLFSAFGNIQISWIDDTSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             EEEE-ECCTTCCHHHHHHHHTTTCSCCCEEEETTEEEEECSCHHHHHHHHHHHH
T ss_pred             EEEE-eCChhhhhHHHHHHhhccCCEEEEEEcCCeEEEEecCHHHHHHHHHhcc
Confidence            5666 9999999999999999999776666678999999999999999997664

>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=98.06  E-value=3e-05  Score=51.93  Aligned_cols=70  Identities=16%  Similarity=0.203  Sum_probs=60.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCC-ceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLG-ERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g-~~l~v~~~~~   74 (262)
                      .+.|.|-+.|+.. .+.|...|+.||+|.+....  ..+-.|.|.+..+|++|| ..||..|.| ..|-|.+..+
T Consensus        24 ~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~~~~~NWihI~Y~s~~~A~rAL-~kNG~ii~g~~mIGV~p~~d   96 (119)
T 1wwh_A           24 DTWVTVFGFPQAS-ASYILLQFAQYGNILKHVMSNTGNWMHIRYQSKLQARKAL-SKDGRIFGESIMIGVKPCID   96 (119)
T ss_dssp             GGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEECSSSSEEEEEESSHHHHHHHH-TTTTCEETTTEECEEEECCC
T ss_pred             CCEEEEECCCHHH-HHHHHHHHHhhCcEEEeccCCCCCeEEEEeCCHHHHHHHH-HhCCeEecCCEEEEEEECCC
Confidence            4789999999885 67788899999999998884  578999999999999999 889999985 6677877653

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=98.03  E-value=1.1e-05  Score=51.65  Aligned_cols=53  Identities=17%  Similarity=0.261  Sum_probs=45.9

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELN   58 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~   58 (262)
                      .++| ++|+.+...||.++|..||.|.--.|....|||.|.+++.|..|+..+.
T Consensus         8 V~~l-~FP~ewKt~Di~~lFs~fggv~I~WidDTsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            8 VLHV-TFPKEWKTSDLYQLFSAFGNIQISWIDDTSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEE-ECCTTCCHHHHHHHTTTSEEEEEEEEETTEEEEEEEEECHHHHHHHHHT
T ss_pred             EEEE-eCChhhhhHHHHHHHhccCCEEEEEEcCCeEEEEecCHHHHHHHHHhcc
Confidence            4566 9999999999999999999665555568999999999999999997664

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

Probab=98.00  E-value=0.00013  Score=47.31  Aligned_cols=74  Identities=23%  Similarity=0.296  Sum_probs=62.6

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhc-----CCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQ-----VGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~-----~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|.|.|||..+.++.|.-+|+.     -|+|..+...+   +-|+|+|.+...|+..|+ -..+.|++..|.|....+
T Consensus         8 ~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~---~~AvItF~d~~va~rVL~-k~~H~L~~~~LsV~P~~~   83 (104)
T 2dhx_A            8 GVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG---CGGVLTFREPADAERVLA-QADHELHGAQLSLRPAPP   83 (104)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET---TEEEEEESSHHHHHHHHT-CSCCBSSSSBCEEEECCC
T ss_pred             ccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC---CcEEEEEcChHHHHHHhc-CCcceecCeEEEEEcCCC
Confidence            468999999999999999999987     25888888875   779999999999999985 336789999999987766


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      +..
T Consensus        84 ~~~   86 (104)
T 2dhx_A           84 RAP   86 (104)
T ss_dssp             CCC
T ss_pred             CCc
Confidence            543

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=97.86  E-value=4.6e-05  Score=49.58  Aligned_cols=75  Identities=15%  Similarity=0.155  Sum_probs=61.9

Q ss_pred             CceEEEcCCCCCCC-----HHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVS-----WQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~-----~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .++|+|.||+.++-     .+.++++|..|+++........- .-..|.|.++++|.+|-..||+..+.|..+++-++.+
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSF-RRirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~YFgq~   83 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSF-KRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQT   83 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTT-TEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCCC
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcc-eEEEEEeCChHHHHHHHHHhccceecCceeEEEecCC
Confidence            35899999987663     26789999999988776665432 3468999999999999999999999999999999874


Q ss_pred             C
Q psy10320        188 R  188 (262)
Q Consensus       188 ~  188 (262)
                      -
T Consensus        84 ~   84 (104)
T 1wey_A           84 L   84 (104)
T ss_dssp             S
T ss_pred             C
Confidence            4

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=97.81  E-value=3.1e-05  Score=49.82  Aligned_cols=61  Identities=18%  Similarity=0.190  Sum_probs=48.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe----------eCcEEEEEeCChhhHHHHHHHhcCcccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----------KNGFGFVEFEDYRDADDAVYELNGKSLLG   64 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i----------~~g~afV~f~~~~~a~~a~~~l~~~~~~g   64 (262)
                      -+|.|+.|||.+||+++.+.+..+-++.....          .-.-|||.|.+.+++....+.++|..|.+
T Consensus        10 ~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D   80 (97)
T 2l08_A           10 HMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLD   80 (97)
T ss_dssp             CCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEEC
T ss_pred             eeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEe
Confidence            48999999999999999988877644322221          13579999999999999999999986643

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=97.63  E-value=0.00043  Score=44.26  Aligned_cols=55  Identities=16%  Similarity=0.238  Sum_probs=44.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHh
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL  170 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l  170 (262)
                      ....+++ ++|.++...||.++|+.||.|.--.+.   -..|||.|.+++.|..|+..+
T Consensus        15 r~HVf~l-~FP~ewKt~DI~~lFs~fggv~I~Wid---DTsAlvvf~~~~~a~~al~~i   69 (100)
T 1whv_A           15 RDHVLHV-TFPKEWKTSDLYQLFSAFGNIQISWID---DTSAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             CCSEEEE-ECCTTCCHHHHHHHHTTTCSCCCEEEE---TTEEEEECSCHHHHHHHHHHH
T ss_pred             CCeEEEE-eCChhhhhHHHHHHhhccCCEEEEEEc---CCeEEEEecCHHHHHHHHHhc
Confidence            3456777 999999999999999999854322221   367999999999999999866

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=97.39  E-value=0.00033  Score=47.53  Aligned_cols=71  Identities=17%  Similarity=0.230  Sum_probs=56.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeE-EEe---------------------eCcEEEEEeCChhhHHHHHHHhcCc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRD-VIL---------------------KNGFGFVEFEDYRDADDAVYELNGK   60 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~-v~i---------------------~~g~afV~f~~~~~a~~a~~~l~~~   60 (262)
                      .+.|.|-+.|+.. ...|.+.|++||.|.+ +.+                     -.++..|.|.++.+|++|| ..||.
T Consensus         7 e~~VtVFGFp~~~-~~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL-~~NG~   84 (132)
T 3p3d_A            7 ELAILVFGYPETM-ANQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDAL-LENGA   84 (132)
T ss_dssp             -CEEEEECCCGGG-HHHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHH-TTTTC
T ss_pred             ceEEEEEecCHHH-HHHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHH-HhCCe
Confidence            4678899996655 4567788999999876 211                     1467799999999999999 89999


Q ss_pred             ccCCceEEEEEccCC
Q psy10320         61 SLLGERVTVEIAKGI   75 (262)
Q Consensus        61 ~~~g~~l~v~~~~~~   75 (262)
                      .|.|..|-|.+..+.
T Consensus        85 ii~G~mIGV~Py~~~   99 (132)
T 3p3d_A           85 VFNGVLLGVIPYTKD   99 (132)
T ss_dssp             EETTEECEEEECCHH
T ss_pred             EeCcEEEEEEECCHH
Confidence            999998888888643

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=97.27  E-value=0.0012  Score=42.08  Aligned_cols=63  Identities=13%  Similarity=0.283  Sum_probs=52.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-cC------CCceEEEEecCHHHHHHHHHHhCCcccCC
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-KR------HRNEGVVEFESSSDMKKALDKLDNAELNG  177 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-~~------~~~~~~v~f~~~~~a~~a~~~l~g~~~~g  177 (262)
                      .|.|.+||+.++++++.+.+.....+...... ++      ...-|||.|.+.+++..-.+.++|..+.+
T Consensus         3 KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D   72 (91)
T 1uw4_A            3 KVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEc
Confidence            68899999999999999999998877666554 21      23468999999999999999999987654

>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=97.26  E-value=0.0019  Score=43.21  Aligned_cols=70  Identities=16%  Similarity=0.054  Sum_probs=57.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCC-ceEEEeec
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNG-RRIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g-~~~~v~~~  185 (262)
                      ..-|.|-+.|... ...|...|++||.|..... .....+..|.|++..+|++||. .||..++| ..|-|...
T Consensus        24 ~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~-~~~~NWihI~Y~s~~~A~rAL~-kNG~ii~g~~mIGV~p~   94 (119)
T 1wwh_A           24 DTWVTVFGFPQAS-ASYILLQFAQYGNILKHVM-SNTGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPC   94 (119)
T ss_dssp             GGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEE-CSSSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEEC
T ss_pred             CCEEEEECCCHHH-HHHHHHHHHhhCcEEEecc-CCCCCeEEEEeCCHHHHHHHHH-hCCeEecCCEEEEEEEC
Confidence            4578888998886 5678889999999998876 3356899999999999999996 69999985 56666654

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=97.18  E-value=0.00053  Score=43.98  Aligned_cols=54  Identities=17%  Similarity=0.229  Sum_probs=43.7

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLD  171 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~  171 (262)
                      ..++| ++|.++...||.++|+.||.|.--.+ .  -..|||.|.+++.|..|+..+.
T Consensus         7 HV~~l-~FP~ewKt~Di~~lFs~fggv~I~Wi-d--DTsAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            7 HVLHV-TFPKEWKTSDLYQLFSAFGNIQISWI-D--DTSAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEE-ECCTTCCHHHHHHHTTTSEEEEEEEE-E--TTEEEEEEEEECHHHHHHHHHT
T ss_pred             eEEEE-eCChhhhhHHHHHHHhccCCEEEEEE-c--CCeEEEEecCHHHHHHHHHhcc
Confidence            45666 99999999999999999994433333 2  3679999999999999998764

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=96.89  E-value=0.00053  Score=57.41  Aligned_cols=50  Identities=20%  Similarity=0.324  Sum_probs=39.1

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe---eCcEEEEEeCChhhHHHHH
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAV   54 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i---~~g~afV~f~~~~~a~~a~   54 (262)
                      .+|+|. .|..+++.+|.++|+.||+|..+.+   ..-||.|||.+.+++..++
T Consensus        54 rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~g~~~~vef~~~~~~~~~~  106 (464)
T 3pq1_A           54 RTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESFGLYAVVEFCQKESIGSLQ  106 (464)
T ss_dssp             TEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSSSEEEEEECC---CCHHHH
T ss_pred             ceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccCCeEEEEEeCCHHHHHHHH
Confidence            578996 7999999999999999999999988   3459999999999999776

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=96.82  E-value=0.0017  Score=44.14  Aligned_cols=72  Identities=11%  Similarity=0.215  Sum_probs=53.6

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEE-Eeccc------------------CCCceEEEEecCHHHHHHHHHHhCCc
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCY-ADAHK------------------RHRNEGVVEFESSSDMKKALDKLDNA  173 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~-~~~~~------------------~~~~~~~v~f~~~~~a~~a~~~l~g~  173 (262)
                      ...|.|-+.|.... ..+-+.|++||.|.. +....                  ....+..|.|++..+|.+||. .||.
T Consensus         7 e~~VtVFGFp~~~~-~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~-~NG~   84 (132)
T 3p3d_A            7 ELAILVFGYPETMA-NQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALL-ENGA   84 (132)
T ss_dssp             -CEEEEECCCGGGH-HHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHT-TTTC
T ss_pred             ceEEEEEecCHHHH-HHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHH-hCCe
Confidence            34677888876665 567788999998866 22211                  134677999999999999996 7999


Q ss_pred             ccCCceEEEeecC
Q psy10320        174 ELNGRRIRLIEDK  186 (262)
Q Consensus       174 ~~~g~~~~v~~~~  186 (262)
                      .++|..|-|....
T Consensus        85 ii~G~mIGV~Py~   97 (132)
T 3p3d_A           85 VFNGVLLGVIPYT   97 (132)
T ss_dssp             EETTEECEEEECC
T ss_pred             EeCcEEEEEEECC
Confidence            9999877775543

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=96.32  E-value=0.0074  Score=38.77  Aligned_cols=65  Identities=14%  Similarity=0.262  Sum_probs=49.9

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-c------CCCceEEEEecCHHHHHHHHHHhCCcccCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-K------RHRNEGVVEFESSSDMKKALDKLDNAELNG  177 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-~------~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g  177 (262)
                      ...|.|..||+.+|++++.+.+...-++.+.... +      ....-|||.|.+.++...-.+..+|..+-+
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D   80 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLD   80 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEEC
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEe
Confidence            4479999999999999988888776555433332 1      123468999999999999999999987644

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.92  E-value=0.0038  Score=52.33  Aligned_cols=54  Identities=13%  Similarity=0.191  Sum_probs=42.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHH
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALD  168 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~  168 (262)
                      ..|+|. .|..+++.+|.++|++||+|..+.+.....-||.|||++.+++..++.
T Consensus        54 rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~g~~~~vef~~~~~~~~~~~  107 (464)
T 3pq1_A           54 RTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESFGLYAVVEFCQKESIGSLQN  107 (464)
T ss_dssp             TEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSSSEEEEEECC---CCHHHHS
T ss_pred             ceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccCCeEEEEEeCCHHHHHHHHh
Confidence            579997 799999999999999999999999988777899999999999887764

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=95.76  E-value=0.027  Score=48.12  Aligned_cols=55  Identities=16%  Similarity=0.228  Sum_probs=48.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNG   59 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~   59 (262)
                      .+++|+ +|+.+...+|.++|+.||.|.-..|....|||.|.+.+.|..++..+..
T Consensus       441 ~vl~v~-f~~~~~~~~i~~~fs~fg~v~V~widdt~a~V~~~~~~~a~~~l~~~~~  495 (507)
T 3d45_A          441 HVLHVT-FPKEWKTSDLYQLFSAFGNIQISWIDDTSAFVSLSQPEQVQIAVNTSKY  495 (507)
T ss_dssp             GEEEEE-CCTTCCHHHHHHHGGGGCCCEEEECSSSEEEEECSCHHHHHHHHHHHTT
T ss_pred             cEEEEe-CCCCCCHHHHHHHHHhcCCEEEEEEcCCeEEEEECCHHHHHHHHHHHHh
Confidence            467776 9999999999999999998766677789999999999999999988753

>2g0c_A ATP-dependent RNA helicase DBPA; RNA recognition motif, hydrolase; 1.70A {Bacillus subtilis} PDB: 3moj_B

Probab=95.13  E-value=0.14  Score=31.30  Aligned_cols=69  Identities=16%  Similarity=0.271  Sum_probs=49.0

Q ss_pred             ceEEEcCC-CCCCCHHHHHHHHhcCC-----ceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          4 TKVYIGGL-PYGVRERDLEKFVKGYG-----RIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         4 ~~l~V~nl-~~~~t~~~l~~~F~~~G-----~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      +||||..- -..+...+|..++..-+     .|-.|.+...|.||+-.. +.|..++..|++..+.|+.+.|+.+.
T Consensus         1 ~~~~i~~Grk~~~~p~~ivg~i~~~~gi~~~~IG~I~i~d~~s~v~v~~-~~~~~~~~~l~~~~i~g~~~~v~~~~   75 (76)
T 2g0c_A            1 MKLYFNGGKKKKIRAVDFVGTIAKIDGVSADDIGIITIMDNASYVEILN-GKGPHVLKVMKNTTVKGKQLKVNKAN   75 (76)
T ss_dssp             CEEEESCCCC----CHHHHHHHHTSTTCCGGGEEEEEECSSCEEEEECT-TCHHHHHHHHTTCCC---CCCEEECC
T ss_pred             CEEEEeCCCccCCCHHHHHHHHHHccCCChhhccEEEEeCCcEEEEECH-HHHHHHHHHhccccCcCceEEEEECC
Confidence            35666322 35778888888887543     477889999999999998 57889999999999999999988653

>4eyt_A Telomerase associated protein P65; RNA, LA protein, LARP7, RRM, XRRM, RNA binding protein; 2.50A {Tetrahymena thermophila} PDB: 4erd_A

Probab=93.90  E-value=0.66  Score=28.83  Aligned_cols=66  Identities=15%  Similarity=0.207  Sum_probs=53.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVE   70 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~   70 (262)
                      .|-|.|-|+|..+-..++.-.....|---.|....|.|.|.|.+.++-..|++.|-+.  .+..|.++
T Consensus        12 nclikiinipqgtlkaevvlavrhlgyefycdyidgqamirfqnsdeqrlaiqkllnh--nnnklqie   77 (129)
T 4eyt_A           12 NCLIKIINIPQGTLKAEVVLAVRHLGYEFYCDYIDGQAMIRFQNSDEQRLAIQKLLNH--NNNKLQIE   77 (129)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHHTTCCCEEEEECSSCEEEEESSHHHHHHHHHHHEET--TTTEEEEE
T ss_pred             CcEEEEEecCCCceeeeeEEeehhcCeeEeeeeecCeeEEEecCChHHHHHHHHHHhc--CCCEEEEE
Confidence            4778899999999999998888888877788889999999999999999999776443  23344444

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=90.49  E-value=1.3  Score=37.77  Aligned_cols=55  Identities=16%  Similarity=0.239  Sum_probs=44.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLD  171 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~  171 (262)
                      ...++|+ +|..+...+|.+.|+.||.+.-..+   ....|||.|.+.+.|..++.++.
T Consensus       440 ~~vl~v~-f~~~~~~~~i~~~fs~fg~v~V~wi---ddt~a~V~~~~~~~a~~~l~~~~  494 (507)
T 3d45_A          440 DHVLHVT-FPKEWKTSDLYQLFSAFGNIQISWI---DDTSAFVSLSQPEQVQIAVNTSK  494 (507)
T ss_dssp             GGEEEEE-CCTTCCHHHHHHHGGGGCCCEEEEC---SSSEEEEECSCHHHHHHHHHHHT
T ss_pred             CcEEEEe-CCCCCCHHHHHHHHHhcCCEEEEEE---cCCeEEEEECCHHHHHHHHHHHH
Confidence            4566666 8999999999999999996544333   34679999999999999998875

---

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	262
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	4e-16
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	4e-07
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	8e-16
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	2e-07
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	3e-15
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	1e-10
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	5e-15
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	4e-12
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	1e-14
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	4e-11
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	6e-14
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	2e-10
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	9e-14
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	2e-10
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	1e-13
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	9e-13
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	3e-13
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	4e-11
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	4e-13
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	3e-09
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	4e-13
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	4e-11
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	5e-13
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	6e-11
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	5e-13
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	5e-11
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	2e-12
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	6e-09
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	3e-12
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	6e-08
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	3e-12
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	2e-08
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	4e-12
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	1e-11
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	6e-12
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	2e-11
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	1e-11
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	2e-07
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	1e-11
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	1e-08
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-11
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	2e-11
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	2e-11
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	2e-08
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	3e-11
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	9e-08
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	3e-11
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	1e-10
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	3e-11
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	6e-10
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	3e-11
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	6e-10
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	4e-11
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	1e-10
d1wg4a_	98	d.58.7.1 (A:) Splicing factor, arginine/serine-ric	5e-11
d1wg4a_	98	d.58.7.1 (A:) Splicing factor, arginine/serine-ric	2e-06
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	6e-11
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	2e-10
d3begb1	87	d.58.7.1 (B:121-207) Splicing factor, arginine/ser	7e-11
d3begb1	87	d.58.7.1 (B:121-207) Splicing factor, arginine/ser	1e-05
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	8e-11
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	2e-09
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	9e-11
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	1e-07
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	1e-10
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	6e-09
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	1e-10
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	6e-09
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	1e-10
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	2e-07
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	1e-10
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	5e-07
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	2e-10
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	3e-07
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	2e-10
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	2e-10
d2cq2a1	101	d.58.7.1 (A:25-125) Alkylation repair AlkB homolog	2e-10
d2cq2a1	101	d.58.7.1 (A:25-125) Alkylation repair AlkB homolog	1e-05
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	3e-10
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	1e-06
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	3e-10
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	2e-09
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	3e-10
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	5e-08
d2bz2a1	79	d.58.7.1 (A:35-113) Negative elongation factor E,	3e-10
d2bz2a1	79	d.58.7.1 (A:35-113) Negative elongation factor E,	7e-07
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	4e-10
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	1e-05
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	5e-10
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	1e-06
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	6e-10
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	2e-08
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	7e-10
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	8e-09
d2adca1	109	d.58.7.1 (A:335-443) Polypyrimidine tract-binding	7e-10
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	8e-10
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	1e-09
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	9e-10
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	3e-09
d1wwha1	81	d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus mu	9e-10
d1wwha1	81	d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus mu	1e-04
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	1e-09
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	4e-06
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	2e-09
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	5e-08
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	3e-09
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	8e-08
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	4e-09
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	3e-06
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	5e-09
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	4e-06
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	5e-09
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	8e-08
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	2e-08
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	4e-04
d2ghpa2	75	d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicin	3e-08
d1x5oa1	101	d.58.7.1 (A:8-108) RNA-binding motif, single-stran	3e-08
d1x5oa1	101	d.58.7.1 (A:8-108) RNA-binding motif, single-stran	8e-08
d1wi6a1	75	d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding	5e-08
d1wi6a1	75	d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding	5e-05
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	6e-08
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	4e-06
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	8e-08
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	9e-06
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	1e-07
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	2e-05
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	1e-07
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	2e-06
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	2e-07
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	7e-06
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	4e-07
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	1e-06
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	6e-07
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	2e-06
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-06
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	0.003
d1weza_	102	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-06
d1weza_	102	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	3e-06
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	d.58.7.3 (A:) 1e-06
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	d.58.7.3 (A:) 2e-04
d2b0ga1	83	d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosoph	2e-06
d2b0ga1	83	d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosoph	2e-05
d2cpya1	103	d.58.7.1 (A:536-638) RNA-binding protein 12 {Human	2e-06
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	2e-06
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	5e-06
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	1e-05
d1weya_	104	d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus)	8e-06
d1weya_	104	d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus)	2e-05
d1fjeb1	91	d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesoc	2e-05
d1fjeb1	91	d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesoc	1e-04
d1whxa_	111	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	2e-05
d1whxa_	111	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	6e-05
d1owxa_	113	d.58.7.1 (A:) Lupus LA protein {Human (Homo sapien	7e-05
d1owxa_	113	d.58.7.1 (A:) Lupus LA protein {Human (Homo sapien	2e-04
d2cq1a1	88	d.58.7.1 (A:51-138) Polypyrimidine tract-binding p	9e-05
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	2e-04
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	5e-04
d1wela1	112	d.58.7.1 (A:412-523) RNA-binding protein 12 {Human	5e-04
d1wg5a_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	8e-04
d2cpia1	89	d.58.7.1 (A:101-189) E3 ubiquitin protein ligase C	0.001

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 72.0 bits (175), Expect = 4e-16
 Identities = 30/209 (14%), Positives = 65/209 (31%), Gaps = 46/209 (22%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
           K++IGGL +   +  L    + +G + D ++          GFGFV +    + D A+  
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRL 116
                                      R +         +      D +      +  ++
Sbjct: 68  ---------------------------RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKI 100

Query: 117 IVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDKLD 171
            V  +        L+D+  Q G++   +        + R    V F+    + K +    
Sbjct: 101 FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-IQK 159

Query: 172 NAELNGRRIRLIEDKPRGGGRGRSRSSSS 200
              +NG    + +   +     +  +S+S
Sbjct: 160 YHTVNGHNCEVRKALSK-----QEMASAS 183

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.9 bits (110), Expect = 4e-07
 Identities = 21/78 (26%), Positives = 32/78 (41%), Gaps = 9/78 (11%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAVY 55
            K+++GG+     E  L  + + YG+I        R    K GF FV F+D+   D  V 
Sbjct: 98  KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV- 156

Query: 56  ELNGKSLLGERVTVEIAK 73
                ++ G    V  A 
Sbjct: 157 IQKYHTVNGHNCEVRKAL 174

>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 = 68.7 bits (168), Expect = 8e-16
 Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 5/88 (5%)

Query: 2  VGTKVYIGGL-PYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGK 60
          + ++V+IG L    V++ D+E     YG+I    +  GF FV++ + R+A  AV   +G+
Sbjct: 14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERNARAAVAGEDGR 73

Query: 61 SLLGERVTVEIAKGIDRSQERGRRGYGS 88
           + G+ + + +A       +  R G  S
Sbjct: 74 MIAGQVLDINLA----AEPKVNRSGPSS 97

>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 = 46.0 bits (109), Expect = 2e-07
 Identities = 14/91 (15%), Positives = 35/91 (38%), Gaps = 4/91 (4%)

Query: 108 PPTRSDHRLIVENLSS-RVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKA 166
            P   + R+ + NL++  V   D++    + G++        H+    V++ +  + + A
Sbjct: 10  DPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGC---SVHKGFAFVQYVNERNARAA 66

Query: 167 LDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
           +   D   + G+ + +         R    S
Sbjct: 67  VAGEDGRMIAGQVLDINLAAEPKVNRSGPSS 97

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 66.9 bits (163), Expect = 3e-15
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 10/80 (12%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
           T +Y+  LP  + +  L+     YG I    +          G  FV +    +A +A+
Sbjct: 6  DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 65

Query: 55 YELNGKSLLG--ERVTVEIA 72
            LN     G  + ++V +A
Sbjct: 66 SALNNVIPEGGSQPLSVRLA 85

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 54.6 bits (131), Expect = 1e-10
 Identities = 12/77 (15%), Positives = 26/77 (33%), Gaps = 7/77 (9%)

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE-----GVVEFESSSDMKKA 166
            D  L V NL   ++   L     + G +   +  +            V +    + ++A
Sbjct: 5   KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 64

Query: 167 LDKLDNAELNG--RRIR 181
           +  L+N    G  + + 
Sbjct: 65  ISALNNVIPEGGSQPLS 81

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 66.1 bits (161), Expect = 5e-15
 Identities = 17/75 (22%), Positives = 34/75 (45%), Gaps = 7/75 (9%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYEL 57
          K+ +  L +GV + D+++    +G ++   +         G   V FE   DA  A+ + 
Sbjct: 2  KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY 61

Query: 58 NGKSLLGERVTVEIA 72
          NG  L G  + +++ 
Sbjct: 62 NGVPLDGRPMNIQLV 76

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 58.4 bits (141), Expect = 4e-12
 Identities = 19/72 (26%), Positives = 33/72 (45%), Gaps = 4/72 (5%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRH----RNEGVVEFESSSDMKKALDKL 170
           +L+V NL   VS  D+++   + G +  A  H            V FE  +D  KA+ + 
Sbjct: 2   KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY 61

Query: 171 DNAELNGRRIRL 182
           +   L+GR + +
Sbjct: 62  NGVPLDGRPMNI 73

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.3 bits (159), Expect = 1e-14
 Identities = 17/77 (22%), Positives = 33/77 (42%), Gaps = 8/77 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
           +Y+G L   V E  L +     G I  + +          G+ +V F+   DA+ A+  
Sbjct: 2  SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 61

Query: 57 LNGKSLLGERVTVEIAK 73
          +N   + G+ V +  ++
Sbjct: 62 MNFDVIKGKPVRIMWSQ 78

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.7 bits (134), Expect = 4e-11
 Identities = 14/72 (19%), Positives = 29/72 (40%), Gaps = 5/72 (6%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR-----HRNEGVVEFESSSDMKKALDKL 170
           L V +L   V+   L +     G +      +            V F+  +D ++ALD +
Sbjct: 3   LYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTM 62

Query: 171 DNAELNGRRIRL 182
           +   + G+ +R+
Sbjct: 63  NFDVIKGKPVRI 74

>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 = 64.3 bits (156), Expect = 6e-14
 Identities = 22/88 (25%), Positives = 37/88 (42%), Gaps = 5/88 (5%)

Query: 2  VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-----GFGFVEFEDYRDADDAVYE 56
          V   +YI  LPY +   ++      YG IR + + N     G  +V +ED  DA +A   
Sbjct: 6  VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDH 65

Query: 57 LNGKSLLGERVTVEIAKGIDRSQERGRR 84
          L+G ++    + V         Q+   +
Sbjct: 66 LSGFNVCNRYLVVLYYNANRAFQKMDTK 93

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.6 bits (131), Expect = 2e-10
 Identities = 15/103 (14%), Positives = 33/103 (32%), Gaps = 2/103 (1%)

Query: 109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEV--CYADAHKRHRNEGVVEFESSSDMKKA 166
           P   +  L + NL  +++ +++ D   + G +           R    V +E   D K A
Sbjct: 3   PPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNA 62

Query: 167 LDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSR 209
            D L    +  R + ++        +              + +
Sbjct: 63  CDHLSGFNVCNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEK 105

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 63.4 bits (154), Expect = 9e-14
 Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 10/86 (11%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---------KNGFGFVEFEDYRDADDAV 54
          +K+ +  +P+   +R++ +    +G ++ V L           GFGFV+F   +DA  A 
Sbjct: 9  SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 68

Query: 55 YEL-NGKSLLGERVTVEIAKGIDRSQ 79
            L +   L G R+ +E A      Q
Sbjct: 69 NALCHSTHLYGRRLVLEWADSEVTVQ 94

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.2 bits (130), Expect = 2e-10
 Identities = 20/82 (24%), Positives = 39/82 (47%), Gaps = 7/82 (8%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA------DAHKRHRNEGVVEFESSS 161
           P  ++  +++V N+  + + +++++     GE+              HR  G V+F +  
Sbjct: 3   PKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQ 62

Query: 162 DMKKALDKLDN-AELNGRRIRL 182
           D KKA + L +   L GRR+ L
Sbjct: 63  DAKKAFNALCHSTHLYGRRLVL 84

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 62.7 bits (152), Expect = 1e-13
 Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 8/78 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
          T + +  LP  + +R+L    +  G I    +          G+ FV+F    D+  A+ 
Sbjct: 3  TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 62

Query: 56 ELNGKSLLGERVTVEIAK 73
           LNG ++  +R+ V  A+
Sbjct: 63 VLNGITVRNKRLKVSYAR 80

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 60.4 bits (146), Expect = 9e-13
 Identities = 16/81 (19%), Positives = 34/81 (41%), Gaps = 5/81 (6%)

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYAD-----AHKRHRNEGVVEFESSSDMKKA 166
           S+  LIV  L   ++ ++L    R +G +                   V+F S  D ++A
Sbjct: 1   SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRA 60

Query: 167 LDKLDNAELNGRRIRLIEDKP 187
           +  L+   +  +R+++   +P
Sbjct: 61  IKVLNGITVRNKRLKVSYARP 81

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 61.9 bits (150), Expect = 3e-13
 Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 2/72 (2%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKS 61
          +++++G LP  + E ++ K  + YG+  +V +    GFGF+  E    A+ A  EL+   
Sbjct: 9  SRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMP 68

Query: 62 LLGERVTVEIAK 73
          L G+++ V  A 
Sbjct: 69 LRGKQLRVRFAC 80

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 56.1 bits (135), Expect = 4e-11
 Identities = 17/77 (22%), Positives = 37/77 (48%), Gaps = 2/77 (2%)

Query: 107 GPPTRSDH-RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKK 165
           G  T +   RL V NL   ++ ++++    + G+        + +  G +  E+ +  + 
Sbjct: 1   GEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVF-IHKDKGFGFIRLETRTLAEI 59

Query: 166 ALDKLDNAELNGRRIRL 182
           A  +LDN  L G+++R+
Sbjct: 60  AKVELDNMPLRGKQLRV 76

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 61.1 bits (148), Expect = 4e-13
 Identities = 17/76 (22%), Positives = 35/76 (46%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYE 56
          K++IGGL +   +  L ++   +G +++ ++          GFGFV F D    D  +  
Sbjct: 2  KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL-A 60

Query: 57 LNGKSLLGERVTVEIA 72
           +   L  + +  ++A
Sbjct: 61 QSRHELDSKTIDPKVA 76

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 50.4 bits (120), Expect = 3e-09
 Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 6/72 (8%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDK 169
           ++ +  LS + + + L+++  Q GEV           KR R  G V F   + + K L  
Sbjct: 2   KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL-A 60

Query: 170 LDNAELNGRRIR 181
               EL+ + I 
Sbjct: 61  QSRHELDSKTID 72

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.5 bits (149), Expect = 4e-13
 Identities = 18/73 (24%), Positives = 35/73 (47%), Gaps = 2/73 (2%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAVYELNGK 60
             VY GG+  G+ ++ + +    +G+I ++ +    G+ FV F  +  A  A+  +NG 
Sbjct: 18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGT 77

Query: 61 SLLGERVTVEIAK 73
          ++ G  V     K
Sbjct: 78 TIEGHVVKCYWGK 90

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.1 bits (135), Expect = 4e-11
 Identities = 9/86 (10%), Positives = 29/86 (33%), Gaps = 1/86 (1%)

Query: 103 DDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSD 162
           +D     +  +  +    ++S ++ Q ++      G++         +    V F +   
Sbjct: 8   EDVVNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIR-VFPEKGYSFVRFSTHES 66

Query: 163 MKKALDKLDNAELNGRRIRLIEDKPR 188
              A+  ++   + G  ++    K  
Sbjct: 67  AAHAIVSVNGTTIEGHVVKCYWGKES 92

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 61.6 bits (149), Expect = 5e-13
 Identities = 23/86 (26%), Positives = 43/86 (50%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKAL 167
              R+   L+ +NLS  ++  +LK+      E+       + +    +EF+S +D +K L
Sbjct: 11  KKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNL 70

Query: 168 DKLDNAELNGRRIRLIEDKPRGGGRG 193
           ++   AE++GR + L     +GG RG
Sbjct: 71  EEKQGAEIDGRSVSLYYTGEKGGTRG 96

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 55.8 bits (134), Expect = 6e-11
 Identities = 18/86 (20%), Positives = 35/86 (40%), Gaps = 8/86 (9%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN---GFGFVEFEDYRDADDAVYELNG 59
             +    L + + E +L++  +    IR V       G  ++EF+   DA+  + E  G
Sbjct: 16 ARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQG 75

Query: 60 KSLLGERVTVEIAKGIDRSQERGRRG 85
            + G  V++         ++ G RG
Sbjct: 76 AEIDGRSVSLYYTG-----EKGGTRG 96

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.1 bits (148), Expect = 5e-13
 Identities = 20/90 (22%), Positives = 35/90 (38%), Gaps = 12/90 (13%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAV 54
             +Y+G L +   E  + +     G I        +      GF FVE+    DA++A+
Sbjct: 7  SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAM 66

Query: 55 YELNGKSLLGERVTVEIAKGIDRSQERGRR 84
            +NG  L    +  +   G     + GR+
Sbjct: 67 RYINGTRLDDRIIRTDWDAG----FKEGRQ 92

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.7 bits (134), Expect = 5e-11
 Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 5/87 (5%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFESSSDMKK 165
           +    L V NLS   + + + +   + G++           K       VE+ S +D + 
Sbjct: 5   KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAEN 64

Query: 166 ALDKLDNAELNGRRIRLIEDKPRGGGR 192
           A+  ++   L+ R IR   D     GR
Sbjct: 65  AMRYINGTRLDDRIIRTDWDAGFKEGR 91

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 59.6 bits (144), Expect = 2e-12
 Identities = 13/76 (17%), Positives = 31/76 (40%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYG--------RIRDVILKNGFGFVEFEDYRDADDAVYE 56
          K+++GGL     E  + ++  G+G               + GF F+ F++       + E
Sbjct: 1  KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM-E 59

Query: 57 LNGKSLLGERVTVEIA 72
              ++   +  +++A
Sbjct: 60 KKYHNVGLSKCEIKVA 75

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.6 bits (118), Expect = 6e-09
 Identities = 10/72 (13%), Positives = 27/72 (37%), Gaps = 6/72 (8%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE-----GVVEFESSSDMKKALDK 169
           ++ V  LS     + ++++    GEV   +    ++         + F+    +KK ++K
Sbjct: 1   KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60

Query: 170 LDNAELNGRRIR 181
                +   +  
Sbjct: 61  -KYHNVGLSKCE 71

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.9 bits (142), Expect = 3e-12
 Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 10/80 (12%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAV 54
             +Y+ GLP  + +++LE+    YGRI        +   +  G GF+ F+   +A++A+
Sbjct: 6  DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAI 65

Query: 55 YELNGKSLLG--ERVTVEIA 72
            LNG+   G  E +TV+ A
Sbjct: 66 KGLNGQKPSGATEPITVKFA 85

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.0 bits (111), Expect = 6e-08
 Identities = 13/75 (17%), Positives = 29/75 (38%), Gaps = 5/75 (6%)

Query: 113 DHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFESSSDMKKAL 167
           D  L V  L   ++ ++L+    Q G +              R  G + F+   + ++A+
Sbjct: 6   DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAI 65

Query: 168 DKLDNAELNGRRIRL 182
             L+  + +G    +
Sbjct: 66  KGLNGQKPSGATEPI 80

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.9 bits (142), Expect = 3e-12
 Identities = 18/82 (21%), Positives = 35/82 (42%), Gaps = 12/82 (14%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVI----------LKNGFGFVEFEDYRDADDA 53
           +++IGG+P   +  ++ + +         +             GF FVE+E +R A  A
Sbjct: 2  CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMA 61

Query: 54 VYELNGKS--LLGERVTVEIAK 73
            +L      L G ++ V+ A+
Sbjct: 62 RRKLMPGRIQLWGHQIAVDWAE 83

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.9 bits (116), Expect = 2e-08
 Identities = 16/83 (19%), Positives = 30/83 (36%), Gaps = 9/83 (10%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR-------HRNEGVVEFESSSDMKKAL 167
           RL +  +      +++ + + +V E                +R    VE+ES      A 
Sbjct: 3   RLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMAR 62

Query: 168 DKLDNA--ELNGRRIRLIEDKPR 188
            KL     +L G +I +   +P 
Sbjct: 63  RKLMPGRIQLWGHQIAVDWAEPE 85

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.6 bits (141), Expect = 4e-12
 Identities = 19/78 (24%), Positives = 31/78 (39%), Gaps = 8/78 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGF--------GFVEFEDYRDADDAVY 55
          T + +  LP  + + +        G I    L            GFV + D +DA+ A+ 
Sbjct: 3  TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAIN 62

Query: 56 ELNGKSLLGERVTVEIAK 73
           LNG  L  + + V  A+
Sbjct: 63 TLNGLRLQTKTIKVSYAR 80

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.0 bits (137), Expect = 1e-11
 Identities = 16/81 (19%), Positives = 33/81 (40%), Gaps = 5/81 (6%)

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRN-----EGVVEFESSSDMKKA 166
           S   LIV  L   ++ ++ +     +GE+      +          G V +    D +KA
Sbjct: 1   SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKA 60

Query: 167 LDKLDNAELNGRRIRLIEDKP 187
           ++ L+   L  + I++   +P
Sbjct: 61  INTLNGLRLQTKTIKVSYARP 81

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 58.1 bits (140), Expect = 6e-12
 Identities = 19/78 (24%), Positives = 34/78 (43%), Gaps = 11/78 (14%)

Query: 7  YIGGLPYGVRERDLEKFVKGYGRIRDVILKN-----------GFGFVEFEDYRDADDAVY 55
          +I  L +   E  L+      G I+   +             GFGFVE++    A  A+ 
Sbjct: 2  FIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALK 61

Query: 56 ELNGKSLLGERVTVEIAK 73
          +L G ++ G ++ V I++
Sbjct: 62 QLQGHTVDGHKLEVRISE 79

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 56.6 bits (136), Expect = 2e-11
 Identities = 15/81 (18%), Positives = 32/81 (39%), Gaps = 8/81 (9%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCY--------ADAHKRHRNEGVVEFESSSDMKKAL 167
           L ++NL+   + + LK    +VG +                    G VE++     +KAL
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 60

Query: 168 DKLDNAELNGRRIRLIEDKPR 188
            +L    ++G ++ +   +  
Sbjct: 61  KQLQGHTVDGHKLEVRISERA 81

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.3 bits (138), Expect = 1e-11
 Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 2/76 (2%)

Query: 5  KVYIGGLPYGVRERDLEKFVK--GYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL 62
           +Y+  L     E  +EK       G +  V     + FV F +  DA +A+  LNGK L
Sbjct: 10 ILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVL 69

Query: 63 LGERVTVEIAKGIDRS 78
           G  + V +AK +D+ 
Sbjct: 70 DGSPIEVTLAKPVDKD 85

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.4 bits (107), Expect = 2e-07
 Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 1/74 (1%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAE 174
            L V NL    S + ++     +         K+ R+   V F +  D  +A+  L+   
Sbjct: 10  ILYVRNLMLSTSEEMIEKEFNNIKPGAVERV-KKIRDYAFVHFSNREDAVEAMKALNGKV 68

Query: 175 LNGRRIRLIEDKPR 188
           L+G  I +   KP 
Sbjct: 69  LDGSPIEVTLAKPV 82

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.1 bits (137), Expect = 1e-11
 Identities = 19/86 (22%), Positives = 34/86 (39%), Gaps = 12/86 (13%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVIL---------KNGFGFVEFEDYRDADDAVYE 56
          ++IG L   + E+ L      +G I                G+ F+ F  +  +D A+  
Sbjct: 1  IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 60

Query: 57 LNGKSLLGERVTVEIAKGIDRSQERG 82
          +NG+ L    +TV  A    +   +G
Sbjct: 61 MNGQYLCNRPITVSYAF---KKDSKG 83

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.6 bits (115), Expect = 1e-08
 Identities = 12/84 (14%), Positives = 26/84 (30%), Gaps = 7/84 (8%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYAD------AHKRHRNEGVVEFESSSDMKKALDK 169
           + + NL   +  + L D     G +               +    + F S      A++ 
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 60

Query: 170 LDNAELNGRRIRLIEDKPRGGGRG 193
           ++   L  R I +     +   +G
Sbjct: 61  MNGQYLCNRPITVSYAFKK-DSKG 83

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.9 bits (137), Expect = 1e-11
 Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 8/77 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNG--------FGFVEFEDYRDADDAVYE 56
          K++IGGLP  + +  +++ +  +G ++   L           + F E+ D    D A+  
Sbjct: 3  KLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAG 62

Query: 57 LNGKSLLGERVTVEIAK 73
          LNG  L  +++ V+ A 
Sbjct: 63 LNGMQLGDKKLLVQRAS 79

>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 = 56.9 bits (137), Expect = 2e-11
 Identities = 10/81 (12%), Positives = 31/81 (38%), Gaps = 5/81 (6%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALD 168
           H+L +  L + ++   +K+ +   G +   +  K       +     E+   +   +A+ 
Sbjct: 2   HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61

Query: 169 KLDNAELNGRRIRLIEDKPRG 189
            L+  +L  +++ +       
Sbjct: 62  GLNGMQLGDKKLLVQRASVGA 82

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.6 bits (136), Expect = 2e-11
 Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 6/76 (7%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN------GFGFVEFEDYRDADDAVYEL 57
            +Y+G L   V E  + +     G  +   +         + FVEF ++RDA  A+  +
Sbjct: 9  RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAM 68

Query: 58 NGKSLLGERVTVEIAK 73
          NG+ +LG+ V V  A 
Sbjct: 69 NGRKILGKEVKVNWAT 84

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.5 bits (115), Expect = 2e-08
 Identities = 16/72 (22%), Positives = 28/72 (38%), Gaps = 3/72 (4%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGE---VCYADAHKRHRNEGVVEFESSSDMKKALDKL 170
             L V NLS  V+   +     Q+G          H  +     VEF    D   AL  +
Sbjct: 9   RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAM 68

Query: 171 DNAELNGRRIRL 182
           +  ++ G+ +++
Sbjct: 69  NGRKILGKEVKV 80

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.2 bits (135), Expect = 3e-11
 Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 3/72 (4%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRD--VILKNGFGFVEFEDYRDADDAVYELNGKSL 62
          K+YIG L   V   DL +            V+LK+G+ FV++ D   A  A+  L+GK  
Sbjct: 3  KLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVE 62

Query: 63 L-GERVTVEIAK 73
          L G+ + V+ + 
Sbjct: 63 LHGKIMEVDYSV 74

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.2 bits (109), Expect = 9e-08
 Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 2/77 (2%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           ++L + NLS  V+  DL+           A           V++   +   +A++ L   
Sbjct: 2   NKLYIGNLSPAVTADDLRQLFGDRKLP-LAGQVLLKSGYAFVDYPDQNWAIRAIETLSGK 60

Query: 174 -ELNGRRIRLIEDKPRG 189
            EL+G+ + +     + 
Sbjct: 61  VELHGKIMEVDYSVSKK 77

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.2 bits (135), Expect = 3e-11
 Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 2/86 (2%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR--HRNEGVVEFESSSDMK 164
           GP   +D R+ V NL   +  +D++D   + G +   D   R        VEFE   D +
Sbjct: 8   GPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAE 67

Query: 165 KALDKLDNAELNGRRIRLIEDKPRGG 190
            A+   D  + +G R+R+   +   G
Sbjct: 68  DAVYGRDGYDYDGYRLRVEFPRSGRG 93

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.1 bits (132), Expect = 1e-10
 Identities = 34/76 (44%), Positives = 45/76 (59%), Gaps = 5/76 (6%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-----GFGFVEFEDYRDADDAVYELN 58
           ++Y+G LP  +R +D+E     YG IRD+ LKN      F FVEFED RDA+DAVY  +
Sbjct: 15 CRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRD 74

Query: 59 GKSLLGERVTVEIAKG 74
          G    G R+ VE  + 
Sbjct: 75 GYDYDGYRLRVEFPRS 90

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.2 bits (135), Expect = 3e-11
 Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 8/77 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
           +Y+GGL   V ++ L      +G I D+ +          GF FVEFE   DA  A+  
Sbjct: 7  VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66

Query: 57 LNGKSLLGERVTVEIAK 73
          +N   L G  + V +AK
Sbjct: 67 MNESELFGRTIRVNLAK 83

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.7 bits (126), Expect = 6e-10
 Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 5/82 (6%)

Query: 112 SDHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFESSSDMKKA 166
           +   L V  L+  V  + L       G++           ++HR    VEFE + D   A
Sbjct: 4   TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 63

Query: 167 LDKLDNAELNGRRIRLIEDKPR 188
           +D ++ +EL GR IR+   KP 
Sbjct: 64  IDNMNESELFGRTIRVNLAKPM 85

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.2 bits (135), Expect = 3e-11
 Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 8/83 (9%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDV--------ILKNGFGFVEFEDYRDADDAVY 55
            VY+GGL   V E  L +     G + +             G+GFVEF    DAD A+ 
Sbjct: 10 ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 69

Query: 56 ELNGKSLLGERVTVEIAKGIDRS 78
           ++   L G+ + V  A   +++
Sbjct: 70 IMDMIKLYGKPIRVNKASAHNKN 92

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.7 bits (126), Expect = 6e-10
 Identities = 23/89 (25%), Positives = 35/89 (39%), Gaps = 7/89 (7%)

Query: 107 GPP--TRSDHRLIVENLSSRVSWQDLKDFMRQVGE-----VCYADAHKRHRNEGVVEFES 159
           GP      D  + V  L  +VS   L +   Q G      +       +H+  G VEF S
Sbjct: 1   GPISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLS 60

Query: 160 SSDMKKALDKLDNAELNGRRIRLIEDKPR 188
             D   A+  +D  +L G+ IR+ +    
Sbjct: 61  EEDADYAIKIMDMIKLYGKPIRVNKASAH 89

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 55.9 bits (134), Expect = 4e-11
 Identities = 17/88 (19%), Positives = 36/88 (40%), Gaps = 7/88 (7%)

Query: 109 PTRSD--HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR-----HRNEGVVEFESSS 161
           P RS     L V ++       ++++     GE+     +        +   +VE+E+  
Sbjct: 1   PQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHK 60

Query: 162 DMKKALDKLDNAELNGRRIRLIEDKPRG 189
               A + L+ AE+ G+ I++     +G
Sbjct: 61  QALAAKEALNGAEIMGQTIQVDWCFVKG 88

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 54.7 bits (131), Expect = 1e-10
 Identities = 16/79 (20%), Positives = 34/79 (43%), Gaps = 8/79 (10%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYG--------RIRDVILKNGFGFVEFEDYRDADDAV 54
          G  +++  +    +E ++++    YG          R      G+  VE+E ++ A  A 
Sbjct: 7  GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAK 66

Query: 55 YELNGKSLLGERVTVEIAK 73
            LNG  ++G+ + V+   
Sbjct: 67 EALNGAEIMGQTIQVDWCF 85

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 55.9 bits (134), Expect = 5e-11
 Identities = 29/99 (29%), Positives = 39/99 (39%), Gaps = 2/99 (2%)

Query: 99  GHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFE 158
           G        P  RSD R++V  L    SWQDLKD MR+        A  +    G+VE+ 
Sbjct: 1   GSSGSSGGPPTRRSDFRVLVSGLPPSGSWQDLKDHMRE--AGDVCYADVQKDGMGMVEYL 58

Query: 159 SSSDMKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
              DM+ AL KLD+ +           +          S
Sbjct: 59  RKEDMEYALRKLDDTKFRSHEGETSYIRVYPERSSGPSS 97

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.2 bits (101), Expect = 2e-06
 Identities = 15/84 (17%), Positives = 30/84 (35%), Gaps = 1/84 (1%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-GFGFVEFEDYRDADDAVYELNGKS 61
            +V + GLP     +DL+  ++  G +    ++  G G VE+    D + A+ +L+   
Sbjct: 15 DFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQKDGMGMVEYLRKEDMEYALRKLDDTK 74

Query: 62 LLGERVTVEIAKGIDRSQERGRRG 85
                     +           G
Sbjct: 75 FRSHEGETSYIRVYPERSSGPSSG 98

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 55.2 bits (132), Expect = 6e-11
 Identities = 11/78 (14%), Positives = 29/78 (37%), Gaps = 8/78 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
            +++   P    +R++   ++    +   I            F +++     DA   V 
Sbjct: 2  CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVE 61

Query: 56 ELNGKSLLGERVTVEIAK 73
          +LNG  + G  +  +++ 
Sbjct: 62 KLNGLKIEGYTLVTKVSN 79

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 53.6 bits (128), Expect = 2e-10
 Identities = 11/80 (13%), Positives = 31/80 (38%), Gaps = 5/80 (6%)

Query: 113 DHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFESSSDMKKAL 167
           +  L + N     + ++++D ++ +  V       +      R    ++  S  D +  +
Sbjct: 1   ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCV 60

Query: 168 DKLDNAELNGRRIRLIEDKP 187
           +KL+  ++ G  +      P
Sbjct: 61  EKLNGLKIEGYTLVTKVSNP 80

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 87

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.3 bits (132), Expect = 7e-11
 Identities = 36/89 (40%), Positives = 45/89 (50%), Gaps = 7/89 (7%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           +R++V  L    SWQDLKD MR+ G+VCYAD ++       VEF    DM  A+ KLDN 
Sbjct: 1   NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGV--VEFVRKEDMTYAVRKLDNT 58

Query: 174 ELNGRRIRLI-----EDKPRGGGRGRSRS 197
           +               D PR    GRSRS
Sbjct: 59  KFRSHEGETAYIRVKVDGPRSPSYGRSRS 87

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 87

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.6 bits (94), Expect = 1e-05
 Identities = 17/82 (20%), Positives = 30/82 (36%), Gaps = 1/82 (1%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRI-RDVILKNGFGFVEFEDYRDADDAVYELNGKSLL 63
          +V + GLP     +DL+  ++  G +    + ++G G VEF    D   AV +L+     
Sbjct: 2  RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFR 61

Query: 64 GERVTVEIAKGIDRSQERGRRG 85
                   +           G
Sbjct: 62 SHEGETAYIRVKVDGPRSPSYG 83

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.7 bits (131), Expect = 8e-11
 Identities = 16/76 (21%), Positives = 31/76 (40%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYG--------RIRDVILKNGFGFVEFEDYRDADDAVYE 56
          K+++GGL       D++ + + +G          +      GFGFV FE     +    E
Sbjct: 1  KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVC-E 59

Query: 57 LNGKSLLGERVTVEIA 72
          ++   +  + V  + A
Sbjct: 60 IHFHEINNKMVECKKA 75

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 50.9 bits (121), Expect = 2e-09
 Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 6/72 (8%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRN-----EGVVEFESSSDMKKALDK 169
           ++ V  LS   + +D+K +  Q G+V  A              G V FES   ++K   +
Sbjct: 1   KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVC-E 59

Query: 170 LDNAELNGRRIR 181
           +   E+N + + 
Sbjct: 60  IHFHEINNKMVE 71

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.0 bits (132), Expect = 9e-11
 Identities = 20/85 (23%), Positives = 31/85 (36%), Gaps = 5/85 (5%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDV---ILKNGFGFVEFEDYRDADDAVYELNGK 60
          + V++G     + E +L +F   YG + DV        F FV F D + A          
Sbjct: 6  SGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLC--GEDL 63

Query: 61 SLLGERVTVEIAKGIDRSQERGRRG 85
           + G  V +  A+    S      G
Sbjct: 64 IIKGISVHISNAEPKHNSNSGPSSG 88

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.6 bits (110), Expect = 1e-07
 Identities = 14/85 (16%), Positives = 30/85 (35%), Gaps = 3/85 (3%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
             + V   +  ++  +L++F  Q G+V      K  R    V F      +      ++ 
Sbjct: 6   SGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCG--EDL 63

Query: 174 ELNGRRIRLIEDKPRGGGRGRSRSS 198
            + G  + +   +P+        SS
Sbjct: 64  IIKGISVHISNAEPK-HNSNSGPSS 87

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.4 bits (130), Expect = 1e-10
 Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 5/71 (7%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE-----GVVEFESSSDMKKALDKL 170
           L +  L    + QDL    +  G++    A            G V+F+S S  +KA+  L
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 60

Query: 171 DNAELNGRRIR 181
             + +  +  +
Sbjct: 61  KASGVQAQMAK 71

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.4 bits (117), Expect = 6e-09
 Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 8/70 (11%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYEL 57
          +YI GL  G  ++DL K  + YG+I               G+GFV+F+    A  AV  L
Sbjct: 1  LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 60

Query: 58 NGKSLLGERV 67
              +  +  
Sbjct: 61 KASGVQAQMA 70

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 56.1 bits (134), Expect = 1e-10
 Identities = 27/96 (28%), Positives = 42/96 (43%), Gaps = 9/96 (9%)

Query: 2   VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGF--------GFVEFEDYRDADDA 53
           V   + +  +P  V E  L +  + YG I  V +            GFV+F+    A  A
Sbjct: 41  VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQA 100

Query: 54  VYELNGKSLLGERVTVEIAK-GIDRSQERGRRGYGS 88
           +  LNG ++L +R+ V +A  G  R    G  G G+
Sbjct: 101 IAGLNGFNILNKRLKVALAASGHQRPGIAGAVGDGN 136

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 51.4 bits (122), Expect = 6e-09
 Identities = 15/100 (15%), Positives = 35/100 (35%), Gaps = 5/100 (5%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE-----GVVEFESSSD 162
           P       L+V  + + V    L+    + G +                 G V+F+S S 
Sbjct: 37  PEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSS 96

Query: 163 MKKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRS 202
            ++A+  L+   +  +R+++          G + +    +
Sbjct: 97  AQQAIAGLNGFNILNKRLKVALAASGHQRPGIAGAVGDGN 136

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.7 bits (131), Expect = 1e-10
 Identities = 14/79 (17%), Positives = 32/79 (40%), Gaps = 9/79 (11%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGY---------GRIRDVILKNGFGFVEFEDYRDADDAV 54
            +YI  L   +++ +L+K +              +   +   G  FV F++   A +A+
Sbjct: 4  HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNAL 63

Query: 55 YELNGKSLLGERVTVEIAK 73
            + G     + + ++ AK
Sbjct: 64 RSMQGFPFYDKPMRIQYAK 82

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.8 bits (108), Expect = 2e-07
 Identities = 14/84 (16%), Positives = 29/84 (34%), Gaps = 6/84 (7%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR------HRNEGVVEFESSSDMK 164
           R +H + + NL+ ++   +LK  +  +                  R +  V F+  S   
Sbjct: 1   RPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSAT 60

Query: 165 KALDKLDNAELNGRRIRLIEDKPR 188
            AL  +       + +R+   K  
Sbjct: 61  NALRSMQGFPFYDKPMRIQYAKTD 84

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.8 bits (131), Expect = 1e-10
 Identities = 24/92 (26%), Positives = 38/92 (41%), Gaps = 8/92 (8%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYG--------RIRDVILKNGFGFVEFEDYRDADDAVYE 56
            V++G +PY   E  L+      G          R+     G+GF E++D   A  A+  
Sbjct: 10  SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGS 88
           LNG+   G  + V+ A      +E    G G+
Sbjct: 70  LNGREFSGRALRVDNAASEKNKEELKSLGTGA 101

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.1 bits (106), Expect = 5e-07
 Identities = 19/83 (22%), Positives = 33/83 (39%), Gaps = 5/83 (6%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFESSSDMKK 165
           RS   + V N+    + + LKD   +VG V      Y     + +  G  E++       
Sbjct: 6   RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALS 65

Query: 166 ALDKLDNAELNGRRIRLIEDKPR 188
           A+  L+  E +GR +R+      
Sbjct: 66  AMRNLNGREFSGRALRVDNAASE 88

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.3 bits (130), Expect = 2e-10
 Identities = 17/77 (22%), Positives = 31/77 (40%), Gaps = 8/77 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
          T + +  +P+ V   ++  F  GY  I   +           G   V FE   +A  AV 
Sbjct: 10 TIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVI 69

Query: 56 ELNGKSLLGERVTVEIA 72
          +LN + +   +V + + 
Sbjct: 70 DLNDRPIGSRKVKLVLG 86

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.0 bits (106), Expect = 3e-07
 Identities = 17/81 (20%), Positives = 34/81 (41%), Gaps = 7/81 (8%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSS 161
           G P      + V+N+   VS  ++ DF      +  +     +       E +V FES  
Sbjct: 5   GKP--GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRD 62

Query: 162 DMKKALDKLDNAELNGRRIRL 182
           +   A+  L++  +  R+++L
Sbjct: 63  EATAAVIDLNDRPIGSRKVKL 83

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.9 bits (129), Expect = 2e-10
 Identities = 26/75 (34%), Positives = 33/75 (44%), Gaps = 8/75 (10%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAV 54
             + + GL     ERDL +    YG I DV +          GF FV FE+  DA +A 
Sbjct: 9  NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 68

Query: 55 YELNGKSLLGERVTV 69
             NG  L G R+ V
Sbjct: 69 ERANGMELDGRRIRV 83

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.9 bits (129), Expect = 2e-10
 Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 7/83 (8%)

Query: 104 DRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEV-----CYADAHKRHRNEGVVEFE 158
           +R  P    +  L V  LS   + +DL++   + G +      Y    +R R    V FE
Sbjct: 2   NRANPD--PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFE 59

Query: 159 SSSDMKKALDKLDNAELNGRRIR 181
           +  D K+A ++ +  EL+GRRIR
Sbjct: 60  NVDDAKEAKERANGMELDGRRIR 82

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.3 bits (130), Expect = 2e-10
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 5/72 (6%)

Query: 6  VYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLL 63
          V  GGL  GV    L   ++  G +  +++     + F  +    ++  A   LNGK ++
Sbjct: 23 VANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVV 82

Query: 64 ---GERVTVEIA 72
             G+++T+ + 
Sbjct: 83 DDLGQKITLYLN 94

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 1e-05
 Identities = 13/85 (15%), Positives = 32/85 (37%), Gaps = 3/85 (3%)

Query: 100 HDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFES 159
           H+  +     T+S   +    L + VS   L   + + G V        ++      + +
Sbjct: 8   HEGIETVSYATQS-LVVANGGLGNGVSRNQLLPVLEKCGLVDALL-MPPNKPYSFARYRT 65

Query: 160 SSDMKKALDKLDNAEL-NGRRIRLI 183
           + + K+A   L+  E+ +    ++ 
Sbjct: 66  TEESKRAYVTLNGKEVVDDLGQKIT 90

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.6 bits (128), Expect = 3e-10
 Identities = 12/71 (16%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYG-RIRDVILKNGFGFVEFEDYRDADDAVYELNGKSL 62
          + + +  LP     +++   +K Y  +   V       FV   +   A +A+   +  S 
Sbjct: 6  SGILVKNLPQDSNCQEVHDLLKDYDLKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSF 65

Query: 63 LGERVTVEIAK 73
           G+ + V++  
Sbjct: 66 RGKDLIVQLQP 76

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.6 bits (102), Expect = 1e-06
 Identities = 8/68 (11%), Positives = 23/68 (33%), Gaps = 2/68 (2%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAE 174
            ++V+NL    + Q++ D ++            +      V   +    + A+       
Sbjct: 7   GILVKNLPQDSNCQEVHDLLKDYDLKYCYVDRNKRTAF--VTLLNGEQAQNAIQMFHQYS 64

Query: 175 LNGRRIRL 182
             G+ + +
Sbjct: 65  FRGKDLIV 72

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.5 bits (128), Expect = 3e-10
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 6/76 (7%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIR------DVILKNGFGFVEFEDYRDADDAVYEL 57
           ++++  +P+  R+ DL +    +G+I       +     GFGFV FE+  DAD A  +L
Sbjct: 12 KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKL 71

Query: 58 NGKSLLGERVTVEIAK 73
          +G  + G ++ V  A 
Sbjct: 72 HGTVVEGRKIEVNNAT 87

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.6 bits (123), Expect = 2e-09
 Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 3/81 (3%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK---RHRNEGVVEFESSSDMKKAL 167
            +  RL V N+  R    DL+    Q G++   +        +  G V FE+S+D  +A 
Sbjct: 9   STPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAR 68

Query: 168 DKLDNAELNGRRIRLIEDKPR 188
           +KL    + GR+I +     R
Sbjct: 69  EKLHGTVVEGRKIEVNNATAR 89

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.1 bits (127), Expect = 3e-10
 Identities = 18/76 (23%), Positives = 34/76 (44%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAVYE 56
          K++IGGL +   ++DL+ +   +G +               GFGFV F++    D  + +
Sbjct: 1  KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVM-D 59

Query: 57 LNGKSLLGERVTVEIA 72
               L G+ +  + A
Sbjct: 60 QKEHKLNGKVIDPKRA 75

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.9 bits (111), Expect = 5e-08
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 6/72 (8%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDK 169
           ++ +  LS   + +DLKD+  + GEV            R R  G V F+ S  + K +  
Sbjct: 1   KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVM-D 59

Query: 170 LDNAELNGRRIR 181
               +LNG+ I 
Sbjct: 60  QKEHKLNGKVID 71

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.1 bits (127), Expect = 3e-10
 Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 4/73 (5%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV--ILKNGFGFVEFEDYRDADDAVYELNGK 60
          G  +Y+ G    +    L      +G I D+         FV +E    AD AV ELNG 
Sbjct: 5  GNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGT 62

Query: 61 SLLGERVTVEIAK 73
           +   ++ V IA+
Sbjct: 63 QVESVQLKVNIAR 75

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 7e-07
 Identities = 11/78 (14%), Positives = 29/78 (37%), Gaps = 3/78 (3%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL 170
           R  + L V      ++   L+      G +         RN   V +E      +A+ +L
Sbjct: 3   RKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLS-MDPPRNCAFVTYEKMESADQAVAEL 59

Query: 171 DNAELNGRRIRLIEDKPR 188
           +  ++   ++++   + +
Sbjct: 60  NGTQVESVQLKVNIARKQ 77

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.6 bits (128), Expect = 4e-10
 Identities = 25/92 (27%), Positives = 42/92 (45%), Gaps = 10/92 (10%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAVY 55
           TK+++GGLPY   +  L K+ +G+G I        R      G+GFV   D   A+ A  
Sbjct: 11  TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK 70

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRGYG 87
           + N   + G +  V +A    + +   + G+ 
Sbjct: 71  DPNPI-IDGRKANVNLAYLGAKPRSL-QTGFA 100

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.3 bits (96), Expect = 1e-05
 Identities = 16/92 (17%), Positives = 33/92 (35%), Gaps = 10/92 (10%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYAD-----AHKRHRNEGVVEFESSSDMKKALD 168
            ++ V  L    +   L+ +    G++  A         + R  G V     +  ++A  
Sbjct: 11  TKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACK 70

Query: 169 KLDNAELNGRRIRL----IEDKPRGGGRGRSR 196
              N  ++GR+  +    +  KPR    G + 
Sbjct: 71  DP-NPIIDGRKANVNLAYLGAKPRSLQTGFAI 101

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.4 bits (125), Expect = 5e-10
 Identities = 21/76 (27%), Positives = 33/76 (43%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAVYE 56
          K+++GG+     E  L  + + YG+I        R    K GF FV F+D  D+ D +  
Sbjct: 4  KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDD-HDSVDKIVI 62

Query: 57 LNGKSLLGERVTVEIA 72
              ++ G    V  A
Sbjct: 63 QKYHTVNGHNCEVRKA 78

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.2 bits (101), Expect = 1e-06
 Identities = 11/72 (15%), Positives = 24/72 (33%), Gaps = 6/72 (8%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVVEFESSSDMKKALDK 169
           ++ V  +        L+D+  Q G++   +        + R    V F+    + K +  
Sbjct: 4   KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-I 62

Query: 170 LDNAELNGRRIR 181
                +NG    
Sbjct: 63  QKYHTVNGHNCE 74

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.1 bits (127), Expect = 6e-10
 Identities = 14/96 (14%), Positives = 34/96 (35%), Gaps = 6/96 (6%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----KNGFGFVEFEDYRDADDAVYELNG 59
            ++ +  L Y V    L +    +G +  +I           +++ D   A  A   L+G
Sbjct: 8   LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDG 67

Query: 60  KSLL--GERVTVEIAKGIDRSQERGRRGYGSYRAPP 93
           +++      + ++ +K    + +        Y  P 
Sbjct: 68  QNIYNACCTLRIDFSKLTSLNVKYNNDKSRDYTRPD 103

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.9 bits (116), Expect = 2e-08
 Identities = 18/92 (19%), Positives = 36/92 (39%), Gaps = 6/92 (6%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVC-YADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           R+IVENL   V+   L     + G V       K ++ + ++++      + A   LD  
Sbjct: 9   RIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQ 68

Query: 174 EL--NGRRIRLIEDKPRGGGRGRSRSSSSRSR 203
            +      +R+   K         + ++ +SR
Sbjct: 69  NIYNACCTLRIDFSKLT---SLNVKYNNDKSR 97

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.3 bits (125), Expect = 7e-10
 Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 6/76 (7%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNG------FGFVEFEDYRDADDAVYEL 57
            ++I  L   +  + L      +G I    +         +GFV FE    A+ A+ ++
Sbjct: 9  GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKM 68

Query: 58 NGKSLLGERVTVEIAK 73
          NG  L   +V V   K
Sbjct: 69 NGMLLNDRKVFVGRFK 84

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.6 bits (118), Expect = 8e-09
 Identities = 16/77 (20%), Positives = 33/77 (42%), Gaps = 3/77 (3%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYAD---AHKRHRNEGVVEFESSSDMKKALDKLD 171
            + ++NL   +  + L D     G +            +  G V FE+    ++A++K++
Sbjct: 10  NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 69

Query: 172 NAELNGRRIRLIEDKPR 188
              LN R++ +   K R
Sbjct: 70  GMLLNDRKVFVGRFKSR 86

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 109

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.2 bits (127), Expect = 7e-10
 Identities = 23/108 (21%), Positives = 42/108 (38%), Gaps = 2/108 (1%)

Query: 114 HRLIVENLS-SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDN 172
             L+V NL+  RV+ Q L       G+V         +   +V+    +  + A+  L+ 
Sbjct: 3   SVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNG 62

Query: 173 AELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSKSRSPRS 220
            +L+G+ IR+   K +     R         +K    S   + + P S
Sbjct: 63  HKLHGKPIRITLSKHQNVQLPREGQEDQGL-TKDYGNSPLHRFKKPGS 109

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.4 bits (125), Expect = 8e-10
 Identities = 18/78 (23%), Positives = 31/78 (39%), Gaps = 8/78 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYG--------RIRDVILKNGFGFVEFEDYRDADDAVY 55
            + +  L    RE DL++  + +G        + +      GF F+ F    DA  A+ 
Sbjct: 9  ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIA 68

Query: 56 ELNGKSLLGERVTVEIAK 73
           ++G       + VE AK
Sbjct: 69 GVSGFGYDHLILNVEWAK 86

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.6 bits (123), Expect = 1e-09
 Identities = 17/88 (19%), Positives = 30/88 (34%), Gaps = 7/88 (7%)

Query: 108 PPTRSD--HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKR-----HRNEGVVEFESS 160
           P  R+D    + V NLS      DL++  R  G +      K       +    + F   
Sbjct: 1   PNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRR 60

Query: 161 SDMKKALDKLDNAELNGRRIRLIEDKPR 188
            D  +A+  +     +   + +   KP 
Sbjct: 61  EDAARAIAGVSGFGYDHLILNVEWAKPS 88

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 52.4 bits (125), Expect = 9e-10
 Identities = 21/87 (24%), Positives = 32/87 (36%), Gaps = 8/87 (9%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYG--------RIRDVILKNGFGFVEFEDYRDADDAVY 55
           ++++  L Y   E DLEK    YG                 GF FV F     A  A  
Sbjct: 9  GRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYA 68

Query: 56 ELNGKSLLGERVTVEIAKGIDRSQERG 82
          E++G+   G  + V  +     + + G
Sbjct: 69 EVDGQVFQGRMLHVLPSTIKKEASQSG 95

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 51.3 bits (122), Expect = 3e-09
 Identities = 20/89 (22%), Positives = 31/89 (34%), Gaps = 5/89 (5%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYAD-----AHKRHRNEGVVEFESSSDMKKALDK 169
           RL V NLS   S +DL+      G +           K+ +    V F       KA  +
Sbjct: 10  RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69

Query: 170 LDNAELNGRRIRLIEDKPRGGGRGRSRSS 198
           +D     GR + ++    +        SS
Sbjct: 70  VDGQVFQGRMLHVLPSTIKKEASQSGPSS 98

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 51.9 bits (124), Expect = 9e-10
 Identities = 12/76 (15%), Positives = 30/76 (39%), Gaps = 3/76 (3%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-GFGFVEFEDYRDADDAVYELNGKSL 62
          T V + G P       L +F +    ++ V+     +  + ++    A  A+   +G+  
Sbjct: 5  TWVTVFGFPQASASYILLQFAQYGNILKHVMSNTGNWMHIRYQSKLQARKAL-SKDGRIF 63

Query: 63 LGERVTVEIAKGIDRS 78
              + + +   ID++
Sbjct: 64 GE-SIMIGVKPCIDKN 78

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.6 bits (87), Expect = 1e-04
 Identities = 13/75 (17%), Positives = 21/75 (28%), Gaps = 5/75 (6%)

Query: 113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDN 172
           D  + V       +   L  F +               N   + ++S    +KAL   D 
Sbjct: 4   DTWVTVFGFPQASASYILLQFAQYG--NILKHVMSNTGNWMHIRYQSKLQARKAL-SKDG 60

Query: 173 AELNGRRIRLIEDKP 187
                  +  I  KP
Sbjct: 61  RIFGESIM--IGVKP 73

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.0 bits (124), Expect = 1e-09
 Identities = 23/87 (26%), Positives = 38/87 (43%), Gaps = 12/87 (13%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVY 55
            K++IGGL +   E  L  + + +G++ D ++          GFGFV F    + D A+ 
Sbjct: 21  RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM- 79

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERG 82
                S+ G  V  + A      +E G
Sbjct: 80  AARPHSIDGRVVEPKRAV---AREESG 103

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.4 bits (99), Expect = 4e-06
 Identities = 17/80 (21%), Positives = 33/80 (41%), Gaps = 6/80 (7%)

Query: 114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALD 168
            +L +  LS   + + L+++  Q G++           KR R  G V F S +++  A+ 
Sbjct: 21  RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM- 79

Query: 169 KLDNAELNGRRIRLIEDKPR 188
                 ++GR +       R
Sbjct: 80  AARPHSIDGRVVEPKRAVAR 99

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.3 bits (122), Expect = 2e-09
 Identities = 20/87 (22%), Positives = 31/87 (35%), Gaps = 16/87 (18%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNG----------------FGFVEFED 46
           + +Y+ GL   V   DL  F K  G ++                          V +ED
Sbjct: 8  NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 67

Query: 47 YRDADDAVYELNGKSLLGERVTVEIAK 73
             A  AV   +GK   G ++ V +A+
Sbjct: 68 PPTAKAAVEWFDGKDFQGSKLKVSLAR 94

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.5 bits (112), Expect = 5e-08
 Identities = 16/91 (17%), Positives = 35/91 (38%), Gaps = 13/91 (14%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-------------RHRNEGVVEF 157
             +  + V+ L+  V+  DL DF +Q G V                    + + +  V +
Sbjct: 6   SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSY 65

Query: 158 ESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
           E     K A++  D  +  G ++++   + +
Sbjct: 66  EDPPTAKAAVEWFDGKDFQGSKLKVSLARKK 96

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.2 bits (122), Expect = 3e-09
 Identities = 18/84 (21%), Positives = 38/84 (45%), Gaps = 8/84 (9%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAV 54
           G  ++I  LP    ++DL +    +G +    +           FGFV +++   A  A+
Sbjct: 18  GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAI 77

Query: 55  YELNGKSLLGERVTVEIAKGIDRS 78
             +NG  +  +R+ V++ +  + S
Sbjct: 78  QSMNGFQIGMKRLKVQLKRSKNDS 101

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.0 bits (111), Expect = 8e-08
 Identities = 13/89 (14%), Positives = 32/89 (35%), Gaps = 8/89 (8%)

Query: 105 RYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVC-----YADAHKRHRNEGVVEFES 159
           + GP       L + +L      QDL       G V              +  G V +++
Sbjct: 13  KEGPEGA---NLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDN 69

Query: 160 SSDMKKALDKLDNAELNGRRIRLIEDKPR 188
               + A+  ++  ++  +R+++   + +
Sbjct: 70  PVSAQAAIQSMNGFQIGMKRLKVQLKRSK 98

>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 = 50.7 bits (121), Expect = 4e-09
 Identities = 15/79 (18%), Positives = 32/79 (40%), Gaps = 10/79 (12%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRI--------RDVILKNGFGFVEFEDYRDADDAV 54
           + + + GLP+   E+DL+++   +G +               GFGFV F +Y      +
Sbjct: 8  TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVM 67

Query: 55 YELNGKSLLGERVTVEIAK 73
           + +   + G     ++  
Sbjct: 68 SQRHM--IDGRWCDCKLPN 84

>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 = 42.3 bits (99), Expect = 3e-06
 Identities = 18/84 (21%), Positives = 29/84 (34%), Gaps = 7/84 (8%)

Query: 110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE-----GVVEFESSSDMK 164
            +    LIV  L  + + QDLK++    GEV      K  +       G V F       
Sbjct: 5   VQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQV 64

Query: 165 KALDKLDNAELNGRRIRLIEDKPR 188
           K + +     ++GR         +
Sbjct: 65  KVMSQRH--MIDGRWCDCKLPNSK 86

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.0 bits (119), Expect = 5e-09
 Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 9/76 (11%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
          K++IGGL +   +  L    + +G + D ++          GFGFV +    + D A+  
Sbjct: 8  KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-N 66

Query: 57 LNGKSLLGERVTVEIA 72
               + G  V  + A
Sbjct: 67 ARPHKVDGRVVEPKRA 82

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.9 bits (98), Expect = 4e-06
 Identities = 15/72 (20%), Positives = 29/72 (40%), Gaps = 6/72 (8%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVG-----EVCYADAHKRHRNEGVVEFESSSDMKKALDK 169
           +L +  LS   + + L+    Q G      V      KR R  G V + +  ++  A+  
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-N 66

Query: 170 LDNAELNGRRIR 181
               +++GR + 
Sbjct: 67  ARPHKVDGRVVE 78

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.1 bits (119), Expect = 5e-09
 Identities = 29/77 (37%), Positives = 46/77 (59%), Gaps = 8/77 (10%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN--------GFGFVEFEDYRDADDAVYE 56
          K+++GGL +   E+ LE+    YG+I +V++          GFGFV FE+  DA DA+  
Sbjct: 7  KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMA 66

Query: 57 LNGKSLLGERVTVEIAK 73
          +NGKS+ G ++ V+ A 
Sbjct: 67 MNGKSVDGRQIRVDQAG 83

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.0 bits (111), Expect = 8e-08
 Identities = 21/85 (24%), Positives = 37/85 (43%), Gaps = 5/85 (5%)

Query: 113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRH-----RNEGVVEFESSSDMKKAL 167
           + +L V  LS   + Q L+    + G++      K       R  G V FE+  D K A+
Sbjct: 5   EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM 64

Query: 168 DKLDNAELNGRRIRLIEDKPRGGGR 192
             ++   ++GR+IR+ +       R
Sbjct: 65  MAMNGKSVDGRQIRVDQAGKSSDNR 89

>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 = 48.4 bits (115), Expect = 2e-08
 Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 4/66 (6%)

Query: 13 YGVRERDLEKFVKGYGRIRDVILKN----GFGFVEFEDYRDADDAVYELNGKSLLGERVT 68
                DL      +G+IR ++L +    G   V F D  +AD  +  L+G+   G ++T
Sbjct: 29 LNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQIT 88

Query: 69 VEIAKG 74
           +   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 = 36.4 bits (84), Expect = 4e-04
 Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 1/55 (1%)

Query: 128 QDLKDFMRQVGEVCYADAHKRH-RNEGVVEFESSSDMKKALDKLDNAELNGRRIR 181
           +DL+    + G++       RH      V F    +    +  LD     GR+I 
Sbjct: 34  EDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQIT 88

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 47.5 bits (112), Expect = 3e-08
 Identities = 17/73 (23%), Positives = 27/73 (36%), Gaps = 7/73 (9%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN------GFGFVEFEDYRDADDAVYEL 57
          T V +  LP    +  + K+ K  G I  V + +       F  +EF  Y  A  A+   
Sbjct: 1  TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAI-TK 59

Query: 58 NGKSLLGERVTVE 70
            K +    + V 
Sbjct: 60 THKVVGQNEIIVS 72

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.2 bits (114), Expect = 3e-08
 Identities = 17/77 (22%), Positives = 30/77 (38%), Gaps = 7/77 (9%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYE 56
          T +YI  LP  + E++LE  +K +G++    +         G GF   E     +  +  
Sbjct: 19 TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGH 78

Query: 57 LNGKSLLGERVTVEIAK 73
           NGK +          +
Sbjct: 79 FNGKFIKTPPGVSAPTE 95

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.1 bits (111), Expect = 8e-08
 Identities = 12/81 (14%), Positives = 28/81 (34%), Gaps = 4/81 (4%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVGE----VCYADAHKRHRNEGVVEFESSSDMKKA 166
           +    L + NL   +  Q+L++ ++  G+        D+    R  G    ES+   +  
Sbjct: 16  QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAV 75

Query: 167 LDKLDNAELNGRRIRLIEDKP 187
           +   +   +          +P
Sbjct: 76  IGHFNGKFIKTPPGVSAPTEP 96

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.8 bits (110), Expect = 5e-08
 Identities = 13/69 (18%), Positives = 27/69 (39%), Gaps = 1/69 (1%)

Query: 6  VYIGGLPYGVRERDLEKFV-KGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLG 64
          + I GLP  V  +++   +     +   V    G  FV   +   A+ A+   +   L  
Sbjct: 1  ILIRGLPGDVTNQEVHDLLSDYELKYCFVDKYKGTAFVTLLNGEQAEAAINTFHQSRLRE 60

Query: 65 ERVTVEIAK 73
            ++V++  
Sbjct: 61 RELSVQLQP 69

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.4 bits (88), Expect = 5e-05
 Identities = 8/66 (12%), Positives = 24/66 (36%), Gaps = 2/66 (3%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL 175
           +++  L   V+ Q++ D +             +++    V   +    + A++    + L
Sbjct: 1   ILIRGLPGDVTNQEVHDLLSD--YELKYCFVDKYKGTAFVTLLNGEQAEAAINTFHQSRL 58

Query: 176 NGRRIR 181
             R + 
Sbjct: 59  RERELS 64

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.5 bits (112), Expect = 6e-08
 Identities = 18/90 (20%), Positives = 34/90 (37%), Gaps = 14/90 (15%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDV--------ILKNGFGFVEFEDYRDADDAV 54
          G  V+I  L +   E  L + ++ +G ++ V            G  F +F     A   +
Sbjct: 8  GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCL 67

Query: 55 YELN------GKSLLGERVTVEIAKGIDRS 78
             +      G  L G ++ V++A   D +
Sbjct: 68 AAASLEAEGGGLKLDGRQLKVDLAVTRDEA 97

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.1 bits (98), Expect = 4e-06
 Identities = 15/93 (16%), Positives = 37/93 (39%), Gaps = 12/93 (12%)

Query: 108 PPTRSDHR-LIVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVVEFESSS 161
           P   ++ + + + NLS     + L + ++Q G++ Y         +  +     +F +  
Sbjct: 2   PSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQE 61

Query: 162 DMKKALDKL------DNAELNGRRIRLIEDKPR 188
             +K L            +L+GR++++     R
Sbjct: 62  AAQKCLAAASLEAEGGGLKLDGRQLKVDLAVTR 94

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.7 bits (110), Expect = 8e-08
 Identities = 15/77 (19%), Positives = 31/77 (40%), Gaps = 8/77 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYE 56
            VYI G P      D++++++  G++ ++ ++        G  FV F+    A   V E
Sbjct: 7  RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV-E 65

Query: 57 LNGKSLLGERVTVEIAK 73
            G+      + +    
Sbjct: 66 TPGQKYKETDLLILFKD 82

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 9e-06
 Identities = 10/75 (13%), Positives = 26/75 (34%), Gaps = 5/75 (6%)

Query: 111 RSDHRLIVENLSSRVSWQDLKDFMRQVG----EVCYADAHKRHRNEGVVEFESSSDMKKA 166
             +  + ++   +  +  D+K+++   G           HK  +    V F+S    KK 
Sbjct: 4   VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKF 63

Query: 167 LDKLDNAELNGRRIR 181
           + +    +     + 
Sbjct: 64  V-ETPGQKYKETDLL 77

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 46.3 bits (109), Expect = 1e-07
 Identities = 14/81 (17%), Positives = 31/81 (38%), Gaps = 11/81 (13%)

Query: 3  GTKVYIGGLPYGVRERDLEKFV----------KGYGRIRDVILKNGFGFVEFEDYRDADD 52
          G ++ I  L   + + +L +                  ++    N   F+ FE+   A+ 
Sbjct: 4  GREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAER 63

Query: 53 AVYELNGKSLLGERVTVEIAK 73
          A+ ++N   L    ++V +A 
Sbjct: 64 AL-QMNRSLLGNREISVSLAD 83

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.1 bits (93), Expect = 2e-05
 Identities = 13/86 (15%), Positives = 34/86 (39%), Gaps = 8/86 (9%)

Query: 110 TRSDHRLIVENLSSRVSWQDL-------KDFMRQVGEVCYADAHKRHRNEGVVEFESSSD 162
           T     +++ NLS+ +  ++L          + ++        H  +     + FE+   
Sbjct: 1   TLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDS 60

Query: 163 MKKALDKLDNAELNGRRIRLIEDKPR 188
            ++AL +++ + L  R I +     +
Sbjct: 61  AERAL-QMNRSLLGNREISVSLADKK 85

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.3 bits (109), Expect = 1e-07
 Identities = 20/83 (24%), Positives = 34/83 (40%), Gaps = 5/83 (6%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGE-VCYADAHKRHRNEGVVEFESSSDMKKA 166
           PP+     L + N+   VS +DLK      G  V      ++ R   +++  S  +  +A
Sbjct: 8   PPSA---TLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQA 64

Query: 167 LDKLDNAEL-NGRRIRLIEDKPR 188
           L  L N +L     +R+   K  
Sbjct: 65  LIDLHNHDLGENHHLRVSFSKST 87

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.2 bits (101), Expect = 2e-06
 Identities = 12/75 (16%), Positives = 26/75 (34%), Gaps = 5/75 (6%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVI----LKNGFGFVEFEDYRDADDAVYELNG 59
            +++  +P  V E DL+      G +               ++     +A  A+ +L+ 
Sbjct: 11 ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHN 70

Query: 60 KSLL-GERVTVEIAK 73
            L     + V  +K
Sbjct: 71 HDLGENHHLRVSFSK 85

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.8 bits (108), Expect = 2e-07
 Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 4/77 (5%)

Query: 1  MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDV--ILKNGFGFVEFEDYRDADDAVYELN 58
             T++++GGL        L +    +G IR +  +  + F ++++E    A  A  ++ 
Sbjct: 15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMR 74

Query: 59 GKSLLGE--RVTVEIAK 73
          G  L G   R+ V+ AK
Sbjct: 75 GFPLGGPDRRLRVDFAK 91

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.6 bits (97), Expect = 7e-06
 Identities = 19/75 (25%), Positives = 28/75 (37%), Gaps = 4/75 (5%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKAL 167
            PT    RL V  L    S   L     + G +   D H +  +   +++ES    + A 
Sbjct: 15  NPTT---RLWVGGLGPNTSLAALAREFDRFGSIRTID-HVKGDSFAYIQYESLDAAQAAC 70

Query: 168 DKLDNAELNGRRIRL 182
            K+    L G   RL
Sbjct: 71  AKMRGFPLGGPDRRL 85

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.4 bits (107), Expect = 4e-07
 Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 9/78 (11%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDV--------ILKNGFGFVEFEDYRDADDAVY 55
            V+   L   +R RDLE F    G++RDV            G  +VEF + +       
Sbjct: 19 RTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSV-PLAI 77

Query: 56 ELNGKSLLGERVTVEIAK 73
           L G+ LLG  + V+ ++
Sbjct: 78 GLTGQRLLGVPIIVQASQ 95

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 1e-06
 Identities = 21/93 (22%), Positives = 34/93 (36%), Gaps = 6/93 (6%)

Query: 101 DRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK-----RHRNEGVV 155
           +  D   P  R    +    L++R+  +DL+DF   VG+V            R +    V
Sbjct: 6   EPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYV 65

Query: 156 EFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
           EF     +  A+  L    L G  I +   +  
Sbjct: 66  EFCEIQSVPLAI-GLTGQRLLGVPIIVQASQAE 97

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.8 bits (105), Expect = 6e-07
 Identities = 18/87 (20%), Positives = 34/87 (39%), Gaps = 8/87 (9%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE-----GVVEFESSS 161
           G P +    L ++NLS RV+ +DL     +  E        R           + F +  
Sbjct: 15  GEPNK---VLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKE 71

Query: 162 DMKKALDKLDNAELNGRRIRLIEDKPR 188
              +AL  ++  +L G+ + +   K +
Sbjct: 72  IAWQALHLVNGYKLYGKILVIEFGKNK 98

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.2 bits (101), Expect = 2e-06
 Identities = 18/78 (23%), Positives = 32/78 (41%), Gaps = 8/78 (10%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVY 55
            +Y+  L   V ERDL      +   +   ++         G  F+ F +   A  A++
Sbjct: 19 KVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALH 78

Query: 56 ELNGKSLLGERVTVEIAK 73
           +NG  L G+ + +E  K
Sbjct: 79 LVNGYKLYGKILVIEFGK 96

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.6 bits (102), Expect = 1e-06
 Identities = 14/83 (16%), Positives = 30/83 (36%), Gaps = 14/83 (16%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKN-------------GFGFVEFEDYRDAD 51
          ++Y+G +P+G+ E  +  F     R+  +                  F F+EF    +  
Sbjct: 3  RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 62

Query: 52 DAVYELNGKSLLGERVTVEIAKG 74
           A+   +G    G+ + +     
Sbjct: 63 QAMA-FDGIIFQGQSLKIRRPHD 84

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.0 bits (77), Expect = 0.003
 Identities = 13/77 (16%), Positives = 28/77 (36%), Gaps = 11/77 (14%)

Query: 115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHK----------RHRNEGVVEFESSSDMK 164
           RL V N+   ++ + + DF      +                 + +N   +EF S  +  
Sbjct: 3   RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 62

Query: 165 KALDKLDNAELNGRRIR 181
           +A+   D     G+ ++
Sbjct: 63  QAMA-FDGIIFQGQSLK 78

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.0 bits (103), Expect = 1e-06
 Identities = 18/94 (19%), Positives = 32/94 (34%), Gaps = 4/94 (4%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA---DAHKRHRNEGVVEFESSSDM 163
              + + H + +  L  R +  D+ +F   +  +          R   E  VEF +  D 
Sbjct: 9   SFQSTTGHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDA 68

Query: 164 KKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
             A+   D A +  R + L  +   G       S
Sbjct: 69  VAAM-AKDKANMQHRYVELFLNSTAGTSGSGPSS 101

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.8 bits (100), Expect = 3e-06
 Identities = 21/89 (23%), Positives = 32/89 (35%), Gaps = 7/89 (7%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFG------FVEFEDYRDADDAVYE 56
           G  V++ GLPY   E D+  F      +R  I     G       VEF  + DA  A+  
Sbjct: 15  GHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAM-A 73

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRG 85
            +  ++    V + +      S      G
Sbjct: 74  KDKANMQHRYVELFLNSTAGTSGSGPSSG 102

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 1e-06
 Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 7/74 (9%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYE 56
           + V +        E    +  + YG + ++ +         G  +V+F    DA+ AV +
Sbjct: 28  SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVID 87

Query: 57  LNGKSLLGERVTVE 70
           LN +   G+ +  E
Sbjct: 88  LNNRWFNGQPIHAE 101

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 2e-04
 Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 4/68 (5%)

Query: 118 VENLSSRVSWQDLKDFMRQVGEV----CYADAHKRHRNEGVVEFESSSDMKKALDKLDNA 173
           ++        +   +   + GEV       +          V+F    D +KA+  L+N 
Sbjct: 32  MQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNR 91

Query: 174 ELNGRRIR 181
             NG+ I 
Sbjct: 92  WFNGQPIH 99

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Length = 83

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]

 Score = 42.5 bits (99), Expect = 2e-06
 Identities = 12/76 (15%), Positives = 23/76 (30%), Gaps = 4/76 (5%)

Query: 108 PPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKAL 167
           PP +    L + NL    +   L     Q              +   VEF +      A 
Sbjct: 6   PPNQ---ILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHDIAFVEFTTELQSNAAK 62

Query: 168 DKLDNAEL-NGRRIRL 182
           + L   ++     +++
Sbjct: 63  EALQGFKITPTHAMKI 78

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Length = 83

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]

 Score = 39.8 bits (92), Expect = 2e-05
 Identities = 14/74 (18%), Positives = 26/74 (35%), Gaps = 4/74 (5%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIR---DVILKNGFGFVEFEDYRDADDAVYELNGK 60
            +++  LP    E  L      +   +    V  ++   FVEF     ++ A   L G 
Sbjct: 9  QILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHDIAFVEFTTELQSNAAKEALQGF 68

Query: 61 SLL-GERVTVEIAK 73
           +     + +  AK
Sbjct: 69 KITPTHAMKITFAK 82

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.3 bits (101), Expect = 2e-06
 Identities = 16/95 (16%), Positives = 34/95 (35%), Gaps = 9/95 (9%)

Query: 4   TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVY 55
              +I  +P+ + + D+ +F++G     + +           G   V+F++  DA  +  
Sbjct: 9   VCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSE- 67

Query: 56  ELNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYR 90
            L+ K L G    V +    D  +           
Sbjct: 68  RLHRKKLNGREAFVHVVTLEDMREIEKNPPAQGKS 102

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.2 bits (101), Expect = 2e-06
 Identities = 18/83 (21%), Positives = 30/83 (36%), Gaps = 2/83 (2%)

Query: 1  MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELN 58
           V   V++ GL   V E DL + ++ +G I  V++        VEFE+   A + V    
Sbjct: 13 SVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAA 72

Query: 59 GKSLLGERVTVEIAKGIDRSQER 81
             +              +   R
Sbjct: 73 DVPVYIAGQQAFFNYSTSKRITR 95

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.4 bits (99), Expect = 5e-06
 Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 9/89 (10%)

Query: 5   KVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYE 56
             ++G LPY V E  +++F +G       +           GFG+ EFED      A+  
Sbjct: 17  TAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-S 75

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRG 85
           LN +SL  +R+ V++A            G
Sbjct: 76  LNEESLGNKRIRVDVADQAQDKDSGPSSG 104

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 1e-05
 Identities = 20/94 (21%), Positives = 33/94 (35%), Gaps = 6/94 (6%)

Query: 109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGE-----VCYADAHKRHRNEGVVEFESSSDM 163
           P    +   + NL   V+ + +K+F R +              +R +  G  EFE    +
Sbjct: 11  PKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSL 70

Query: 164 KKALDKLDNAELNGRRIRLIEDKPRGGGRGRSRS 197
             AL  L+   L  +RIR+              S
Sbjct: 71  LSAL-SLNEESLGNKRIRVDVADQAQDKDSGPSS 103

>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 = 41.3 bits (96), Expect = 8e-06
 Identities = 15/107 (14%), Positives = 30/107 (28%), Gaps = 9/107 (8%)

Query: 110 TRSDHRLIVENLSSRV-SWQDLKDFMRQVGEVCYADAH---KRHRNEGVVEFESSSDMKK 165
           +     LI    +  V S  + +     +      D      +      + F +      
Sbjct: 2   SSGSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAAD 61

Query: 166 ALDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRS 212
           A  +L   E  G+ ++L   +          SS     +  +S   S
Sbjct: 62  ARLRLHKTEFLGKEMKLYFAQTL-----HIGSSHLAPPNPDKSGPSS 103

>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 = 40.5 bits (94), Expect = 2e-05
 Identities = 12/98 (12%), Positives = 26/98 (26%), Gaps = 8/98 (8%)

Query: 4   TKVYIGGLPYGVRE-----RDLEKFVKGYGRIRDVILKN--GFGFVEFEDYRDADDAVYE 56
           + +        V          E   + Y +              + F +   A DA   
Sbjct: 6   SGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAADARLR 65

Query: 57  LNGKSLLGERVTVEIAKGIDRSQERGRRGYGSYRAPPP 94
           L+    LG+ + +  A+ +              ++ P 
Sbjct: 66  LHKTEFLGKEMKLYFAQTLHIGSSH-LAPPNPDKSGPS 102

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 40.3 bits (93), Expect = 2e-05
 Identities = 23/86 (26%), Positives = 41/86 (47%), Gaps = 5/86 (5%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEV----CYADAHKRHRNEGVVEFESSSD 162
           G  + +   L + NL+   S  +LK  + ++               +R  G V+FES+ D
Sbjct: 7   GSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAED 66

Query: 163 MKKALDKLDNAELNGRRIRLIEDKPR 188
           ++KAL+ L   ++ G  I+L + K R
Sbjct: 67  LEKALE-LTGLKVFGNEIKLEKPKGR 91

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 38.0 bits (87), Expect = 1e-04
 Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 8/79 (10%)

Query: 3  GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVY 55
             ++IG L       +L+  +       D+ +          FG+V+FE   D + A+ 
Sbjct: 13 PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE 72

Query: 56 ELNGKSLLGERVTVEIAKG 74
           L G  + G  + +E  KG
Sbjct: 73 -LTGLKVFGNEIKLEKPKG 90

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 111

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.7 bits (94), Expect = 2e-05
 Identities = 17/107 (15%), Positives = 38/107 (35%), Gaps = 1/107 (0%)

Query: 107 GPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKA 166
           G   RS   ++ +NL +     ++++   + G +             +VEF    + +KA
Sbjct: 4   GSSGRSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVL-LPEGGITAIVEFLEPLEARKA 62

Query: 167 LDKLDNAELNGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSS 213
              L  ++ +   + L        G    +  S   +   ++ S  S
Sbjct: 63  FRHLAYSKFHHVPLYLEWAPIGVFGAAPQKKDSQHEQPAEKAESGPS 109

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 111

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.2 bits (90), Expect = 6e-05
 Identities = 15/83 (18%), Positives = 29/83 (34%), Gaps = 2/83 (2%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKS 61
          T +    LP G    ++++    +G +  V+L        VEF +  +A  A   L    
Sbjct: 11 TVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSK 70

Query: 62 LLGERVTVEIAKGIDRSQERGRR 84
               + +E A          ++
Sbjct: 71 FHHVPLYLEWAPIGVFGAAPQKK 93

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 113

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.0 bits (90), Expect = 7e-05
 Identities = 13/99 (13%), Positives = 33/99 (33%)

Query: 116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL 175
               +L  +   +DL       GE+ + D  +  +   ++  E + +        +N  L
Sbjct: 14  KFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNL 73

Query: 176 NGRRIRLIEDKPRGGGRGRSRSSSSRSRSKSRSRSRSSK 214
             R   +  +   G     +       + +S ++ +S  
Sbjct: 74  QLRNKEVTWEVLEGEVEKEALKKIIEDQQESLNKWKSKG 112

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 113

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.9 bits (87), Expect = 2e-04
 Identities = 12/84 (14%), Positives = 27/84 (32%), Gaps = 3/84 (3%)

Query: 4  TKVYIGGLPYGVRERDLEKFVKGYGRIRDV--ILKNGFGFVEFED-YRDADDAVYELNGK 60
             + G L       DL      +G I+ +  +     G + F++  ++A     + N  
Sbjct: 12 LLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNG 71

Query: 61 SLLGERVTVEIAKGIDRSQERGRR 84
          +L      V         ++   +
Sbjct: 72 NLQLRNKEVTWEVLEGEVEKEALK 95

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.3 bits (88), Expect = 9e-05
 Identities = 12/73 (16%), Positives = 27/73 (36%), Gaps = 4/73 (5%)

Query: 5  KVYIGGLPYGVRERDLEKFVKGYGRI--RDVILKNGFGFVEFEDYRDADDAV--YELNGK 60
           ++I  LP  V E ++      +G++    ++      F+E      A   V  Y     
Sbjct: 10 VLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTP 69

Query: 61 SLLGERVTVEIAK 73
           L  + + ++ + 
Sbjct: 70 HLRNQPIYIQYSN 82

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.3 bits (86), Expect = 2e-04
 Identities = 16/89 (17%), Positives = 30/89 (33%), Gaps = 14/89 (15%)

Query: 107 GPPTR-------SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNE------- 152
           G PT             ++++       +D++D   + G V   +  +            
Sbjct: 1   GHPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGK 60

Query: 153 GVVEFESSSDMKKALDKLDNAELNGRRIR 181
             VEF S  D +KA+  L   +   R + 
Sbjct: 61  IFVEFTSVFDCQKAMQGLTGRKFANRVVV 89

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.5 bits (84), Expect = 5e-04
 Identities = 16/82 (19%), Positives = 26/82 (31%), Gaps = 10/82 (12%)

Query: 1  MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----------KNGFGFVEFEDYRDA 50
          MV  +  +    Y     D+      YG ++ + +            G  FVEF    D 
Sbjct: 12 MVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDC 71

Query: 51 DDAVYELNGKSLLGERVTVEIA 72
            A+  L G+      V  +  
Sbjct: 72 QKAMQGLTGRKFANRVVVTKYC 93

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 112

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.4 bits (83), Expect = 5e-04
 Identities = 17/93 (18%), Positives = 36/93 (38%), Gaps = 6/93 (6%)

Query: 101 DRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-----DAHKRHRNEGVV 155
            +  R   P  +   + ++ L      + + DF +++  V  +       + +   EG V
Sbjct: 6   QKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFV 65

Query: 156 EFESSSDMKKALDKLDNAELNGRRIRLIEDKPR 188
           EF + +D K AL       +  R I++     +
Sbjct: 66  EFRNEADYKAAL-CRHKQYMGNRFIQVHPITKK 97

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.0 bits (82), Expect = 8e-04
 Identities = 14/91 (15%), Positives = 33/91 (36%), Gaps = 9/91 (9%)

Query: 3   GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVI--------LKNGFGFVEFEDYRDADDAV 54
              V + GLP+G  + ++ +F  G   + + +           G  FV+F     A+ A+
Sbjct: 15  DGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKAL 74

Query: 55  YELNGKSLLGERVTVEIAKGIDRSQERGRRG 85
              + + +    + +  +   +        G
Sbjct: 75  K-KHKERIGHRYIEIFKSSRAEVRTSGPSSG 104

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.8 bits (79), Expect = 0.001
 Identities = 14/79 (17%), Positives = 31/79 (39%), Gaps = 14/79 (17%)

Query: 5  KVYIGGLPYGVRERDLEK---FVKGYGRIRDVILKN-----------GFGFVEFEDYRDA 50
           V++ GL   + + ++ K   +   +G+I  V++ N              +V +    DA
Sbjct: 10 LVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDA 69

Query: 51 DDAVYELNGKSLLGERVTV 69
            A+  +N   + G  +  
Sbjct: 70 LRAIQCVNNVVVDGRTLKA 88

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	262
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.97
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.89
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.88
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.87
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.87
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.87
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.86
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.86
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.86
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.86
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.86
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.86
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.86
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.86
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.86
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.86
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.86
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.86
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.86
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.86
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.85
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.85
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.85
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.85
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.85
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.85
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.85
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.85
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.85
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.85
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.85
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.85
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.85
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.84
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.84
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.84
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.84
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.84
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.84
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.83
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.83
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.83
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.83
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.83
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.83
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.83
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.83
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.83
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.83
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.82
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.82
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.82
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.82
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.82
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.82
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.82
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.82
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.82
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.82
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.82
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.82
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.82
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.82
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.81
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.81
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.81
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.8
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.8
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.8
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.8
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.79
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.79
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.78
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.78
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.78
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.78
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.78
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.78
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.77
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.77
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.77
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.77
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.77
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.77
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.76
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.76
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.76
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.76
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.76
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.76
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.76
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.76
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.75
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.75
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.75
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.75
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.75
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.75
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.74
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.74
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.74
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.74
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.74
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.74
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.73
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.73
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.72
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.72
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.72
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.72
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.72
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.72
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.72
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.72
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.71
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.71
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.71
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.71
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.71
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.71
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.7
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.7
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.7
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.7
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.7
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.7
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.7
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.7
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.7
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.7
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.69
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.69
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.69
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.69
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.69
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.69
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.69
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.69
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.68
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.68
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.67
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.67
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.67
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.67
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.66
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.66
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.66
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.66
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.65
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.65
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	99.64
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.64
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.64
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.63
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.63
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.63
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.63
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.62
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.6
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.59
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.57
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.56
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.56
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.56
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.49
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.48
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.44
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.41
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.4
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	99.39
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.33
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.25
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	98.48
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	98.2
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	97.9
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	97.47
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.3
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	97.24
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	97.21
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	96.33

>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=99.97  E-value=7.7e-31  Score=195.07  Aligned_cols=158  Identities=20%  Similarity=0.377  Sum_probs=133.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .+||||+|||+.+|+++|+++|+.||.|..+.+.        +|||||+|.++++|+.|+ .+++..+.+..+.+.....
T Consensus         6 ~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~-~~~~~~~~~~~~~~~~~~~   84 (183)
T d1u1qa_           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-NARPHKVDGRVVEPKRAVS   84 (183)
T ss_dssp             HHEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHH-HTCSCEETTEECEEEECCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHH-HhcCCcccccchhhhhhhh
Confidence            3799999999999999999999999999999873        689999999999999999 5666777888888776654


Q ss_pred             CCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCC
Q psy10320         75 IDRSQERGRRGYGSYRAPPPRRGWGHDRDDRYGPPTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRH  149 (262)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~  149 (262)
                      .......                          .......+|||+|||..+++++|.++|..||.|..+.+.     +.+
T Consensus        85 ~~~~~~~--------------------------~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~  138 (183)
T d1u1qa_          85 REDSQRP--------------------------GAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKK  138 (183)
T ss_dssp             TTGGGST--------------------------TTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCE
T ss_pred             ccccccc--------------------------ccccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCcc
Confidence            3322210                          112234589999999999999999999999999999776     356


Q ss_pred             CceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        150 RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       150 ~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +|+|||+|.+.++|.+|+. +++..+.|+.|.|..+.++
T Consensus       139 ~g~~fV~f~~~e~A~~Al~-~~~~~~~G~~i~V~~A~~k  176 (183)
T d1u1qa_         139 RGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKALSK  176 (183)
T ss_dssp             EEEEEEEESCHHHHHHHHT-SSCEEETTEEEEEEECCCH
T ss_pred             ceeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEecCCc
Confidence            7899999999999999996 7999999999999988664

>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=99.89  E-value=4.1e-23  Score=132.01  Aligned_cols=73  Identities=26%  Similarity=0.474  Sum_probs=69.0

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      ..|+|||+|||+.+|+++|+++|++||.|..|.|        .+|||||+|.++++|+.|++.|||..|.|+.|.|++++
T Consensus         1 s~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~   80 (82)
T d1b7fa1           1 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   80 (82)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            3689999999999999999999999999999998        27899999999999999999999999999999999986


Q ss_pred             C
Q psy10320         74 G   74 (262)
Q Consensus        74 ~   74 (262)
                      +
T Consensus        81 p   81 (82)
T d1b7fa1          81 P   81 (82)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.88  E-value=1.1e-22  Score=130.04  Aligned_cols=72  Identities=28%  Similarity=0.493  Sum_probs=68.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      -|+|||+|||+.+|+++|+++|+.||+|..|.+.        +|||||+|.++++|+.|+..|||..|.|+.|.|.++++
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~AkP   81 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            4789999999999999999999999999999983        68999999999999999999999999999999999864

>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=99.87  E-value=3e-22  Score=130.68  Aligned_cols=74  Identities=26%  Similarity=0.491  Sum_probs=69.3

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .+|||||+|||+++|+++|+++|+.||+|..|.|.        +|||||+|.+.++|..|++.|||..|+|+.|.|+|+.
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a~   85 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDA   85 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            37899999999999999999999999999999983        6799999999999999999999999999999999986


Q ss_pred             CC
Q psy10320         74 GI   75 (262)
Q Consensus        74 ~~   75 (262)
                      ..
T Consensus        86 ~~   87 (93)
T d1h2vz_          86 GF   87 (93)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.87  E-value=2e-22  Score=132.53  Aligned_cols=73  Identities=29%  Similarity=0.568  Sum_probs=68.7

Q ss_pred             cceEEEcCCC-CCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLP-YGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~-~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+||| ..+++++|+++|++||.|..|.|++|||||+|.+.++|+.||+.|||..|.|+.|.|+++...
T Consensus        15 ~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~   88 (98)
T d1wf2a_          15 NSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAAEP   88 (98)
T ss_dssp             CCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETTSC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEeCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            5789999997 468889999999999999999999999999999999999999999999999999999998754

>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=99.87  E-value=1.2e-22  Score=128.66  Aligned_cols=74  Identities=28%  Similarity=0.381  Sum_probs=67.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCc-ccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGK-SLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~-~~~g~~l~v~~~~~~~   76 (262)
                      |++|||+|||+++|+++|+++|+.||.|..+.+  .+|||||+|.++++|+.|++.|||. .|+|+.|.|+++.++.
T Consensus         1 mn~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~k~   77 (80)
T d2cqha1           1 MNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKK   77 (80)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEecccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCCcC
Confidence            578999999999999999999999999876444  6999999999999999999999996 6999999999998653

>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=99.86  E-value=3.3e-22  Score=127.34  Aligned_cols=72  Identities=15%  Similarity=0.336  Sum_probs=66.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .|||||+|||+++|+++|.++|+.||.|..+.+        ++|||||+|.++++|+.|++.|||..|+|+.|.|.++.+
T Consensus         1 d~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~P   80 (81)
T d2ghpa1           1 ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP   80 (81)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CcEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            379999999999999999999999999987665        379999999999999999999999999999999999875

>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=99.86  E-value=8.3e-22  Score=128.62  Aligned_cols=74  Identities=32%  Similarity=0.596  Sum_probs=69.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+.+|+++|+++|+.||+|..|.+.      +|||||+|.++++|+.|+..|||..|+|+.|.|+++.++.
T Consensus        11 ~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~~r~   90 (93)
T d2cq3a1          11 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATARV   90 (93)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCSSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCcCC
Confidence            5799999999999999999999999999999983      7899999999999999999999999999999999998653

>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=99.86  E-value=6.2e-22  Score=129.17  Aligned_cols=74  Identities=31%  Similarity=0.452  Sum_probs=69.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|++.|||..|+|+.|.|.++.+
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~~   88 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASA   88 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTT
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            4799999999999999999999999999999882        68999999999999999999999999999999999986


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus        89 ~~   90 (93)
T d1x5ua1          89 HN   90 (93)
T ss_dssp             TS
T ss_pred             CC
Confidence            54

>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=99.86  E-value=5.7e-22  Score=128.02  Aligned_cols=74  Identities=23%  Similarity=0.446  Sum_probs=68.9

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .+++|||+|||+.+|+++|.++|+.||+|..|.+.        +|||||+|.+.++|+.|+..|||..|.|+.|.|+|+.
T Consensus         6 ~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a~   85 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF   85 (88)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEec
Confidence            36799999999999999999999999999999883        6899999999999999999999999999999999997


Q ss_pred             CC
Q psy10320         74 GI   75 (262)
Q Consensus        74 ~~   75 (262)
                      .+
T Consensus        86 ~k   87 (88)
T d1rk8a_          86 VK   87 (88)
T ss_dssp             EC
T ss_pred             CC
Confidence            53

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=1e-21  Score=127.50  Aligned_cols=73  Identities=29%  Similarity=0.464  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .+||||+|||+++|+++|+++|+.||+|..|.+.      ++||||+|.+.++|+.|+..|+|..|.|+.|.|.++..+
T Consensus         8 ~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~~~   86 (90)
T d2cqia1           8 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATTP   86 (90)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCT
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCC
Confidence            4799999999999999999999999999999983      789999999999999999999999999999999999754

>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=99.86  E-value=5.4e-22  Score=125.81  Aligned_cols=70  Identities=24%  Similarity=0.360  Sum_probs=66.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .+|||+|||+.+|+++|.++|+.||+|..|.|.        +|||||+|.++++|..|++.|||..+.|+.|.|.|++
T Consensus         1 aslfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~   78 (80)
T d1cvja1           1 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            369999999999999999999999999999983        6899999999999999999999999999999999985

>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=99.86  E-value=4.5e-22  Score=128.86  Aligned_cols=73  Identities=26%  Similarity=0.413  Sum_probs=68.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..+.|.      +|||||+|.+.++|+.||+.|||..|+|+.|.|.++...
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~~~   86 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   86 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECCCT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            4689999999999999999999999999999983      789999999999999999999999999999999999754

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=7.7e-22  Score=133.64  Aligned_cols=73  Identities=21%  Similarity=0.206  Sum_probs=69.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .|||||+|||+.+|+++|+++|+.||+|..|.|.  +|||||+|.+.++|+.||+.|||..|.|+.|.|+|+...
T Consensus        10 ~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~~   84 (111)
T d1whxa_          10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIG   84 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETT
T ss_pred             CCEEEEECCCCCCCHHHHHhhhhccCCccEEEeeccCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCCC
Confidence            5899999999999999999999999999999994  789999999999999999999999999999999998754

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=1.8e-21  Score=128.66  Aligned_cols=74  Identities=27%  Similarity=0.446  Sum_probs=69.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|..||.|..|.|.        +|||||+|.+.++|+.||+.||+..|+|+.|.|.++..
T Consensus         8 ~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~~   87 (99)
T d1whwa_           8 SGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTI   87 (99)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECCC
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            4789999999999999999999999999999983        68999999999999999999999999999999999986


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus        88 ~~   89 (99)
T d1whwa_          88 KK   89 (99)
T ss_dssp             CS
T ss_pred             CC
Confidence            53

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=8.8e-22  Score=126.41  Aligned_cols=73  Identities=29%  Similarity=0.585  Sum_probs=69.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+++++++|+++|+.||+|.+|.+.  ++||||+|.+.++|+.|++.|||..|.|+.|.|+++...
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~~~   82 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHS   82 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeecccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCc
Confidence            4789999999999999999999999999999995  799999999999999999999999999999999999764

>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=99.86  E-value=1e-21  Score=123.81  Aligned_cols=69  Identities=25%  Similarity=0.488  Sum_probs=66.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      +|||+|||+.+|+++|+++|+.||+|..|.|.       +|||||+|.++++|+.|++.|||..++|+.|.|+++.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            69999999999999999999999999999983       7899999999999999999999999999999999875

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=1.4e-21  Score=127.70  Aligned_cols=75  Identities=28%  Similarity=0.585  Sum_probs=69.5

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---------CcEEEEEeCChhhHHHHHHHh-cCcccCCceEEEEE
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---------NGFGFVEFEDYRDADDAVYEL-NGKSLLGERVTVEI   71 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~a~~a~~~l-~~~~~~g~~l~v~~   71 (262)
                      ..++|||+|||+.+|+++|+++|+.||.|..|.|.         +|||||+|.++++|..||..| ||..|+|+.|.|+|
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~~   86 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEW   86 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEEE
Confidence            36899999999999999999999999999999982         689999999999999999998 88999999999999


Q ss_pred             ccCCC
Q psy10320         72 AKGID   76 (262)
Q Consensus        72 ~~~~~   76 (262)
                      +....
T Consensus        87 A~~~~   91 (94)
T d2cpha1          87 ADSEV   91 (94)
T ss_dssp             CCCCC
T ss_pred             cCCCC
Confidence            98653

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=7.1e-22  Score=127.93  Aligned_cols=73  Identities=34%  Similarity=0.591  Sum_probs=68.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..||||+|||+++|+++|+++|+.||+|..|.|.        +|||||+|.+.++|+.|++.|||..|+|+.|.|.++.+
T Consensus         5 ~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~p   84 (89)
T d2cqba1           5 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKP   84 (89)
T ss_dssp             CSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            4699999999999999999999999999999983        78999999999999999999999999999999999975


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        85 ~   85 (89)
T d2cqba1          85 M   85 (89)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=5.9e-22  Score=128.60  Aligned_cols=73  Identities=27%  Similarity=0.439  Sum_probs=68.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+++|+++|.++|+.||+|..|.|.        +|||||+|.+.++|+.||+.|||..|+|+.|.|+++++
T Consensus         8 ~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~akp   87 (90)
T d2cq0a1           8 NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAKP   87 (90)
T ss_dssp             SEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEeeeC
Confidence            5799999999999999999999999999999883        67999999999999999999999999999999999975


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        88 ~   88 (90)
T d2cq0a1          88 S   88 (90)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=8.3e-22  Score=130.83  Aligned_cols=74  Identities=23%  Similarity=0.456  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      +++|||+|||+.+|+++|+++|+.||.|..+.+.        +|||||+|.++++|+.||+.|||..|.|+.|.|+++.+
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~~   97 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRS   97 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeCC
Confidence            5789999999999999999999999999998872        68999999999999999999999999999999999986


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      +.
T Consensus        98 k~   99 (102)
T d2cpza1          98 KN   99 (102)
T ss_dssp             SC
T ss_pred             CC
Confidence            53

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=1.2e-21  Score=125.55  Aligned_cols=70  Identities=34%  Similarity=0.686  Sum_probs=65.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCC--ceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLG--ERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~   72 (262)
                      +++|||+|||+.+|+++|+++|++||+|..|.|.        +|||||+|.++++|+.|++.|||..+.|  ++|.|.|+
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~A   85 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA   85 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEeC
Confidence            6899999999999999999999999999999883        6799999999999999999999999988  56888875

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=1.3e-21  Score=128.22  Aligned_cols=73  Identities=25%  Similarity=0.489  Sum_probs=69.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|.  +|||||+|.+.++|..|+..|||..|.|+.|.|.|++..
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak~~   92 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKES   92 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEecceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            4789999999999999999999999999999994  899999999999999999999999999999999998753

>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=99.85  E-value=1.2e-21  Score=126.38  Aligned_cols=73  Identities=16%  Similarity=0.262  Sum_probs=67.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCC-ceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYG-RIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G-~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      +++|||+|||+++|++||+++|+.|| .+..+...++||||+|.++++|+.|++.||+..|+|+.|.|+++...
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G~~~~~~~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~~~   78 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYDLKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTD   78 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSCCCCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCC
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcCceeeeeeccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            57999999999999999999999999 45556567999999999999999999999999999999999998654

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=1.5e-21  Score=125.15  Aligned_cols=72  Identities=28%  Similarity=0.530  Sum_probs=68.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .+|||+|||+.+|+++|+++|+.||+|..|.|.        +|||||+|.++++|+.|++.|||..|.|+.|.|.++...
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~~~   81 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVG   81 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            589999999999999999999999999999983        699999999999999999999999999999999999754

>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=99.85  E-value=2e-21  Score=132.03  Aligned_cols=73  Identities=27%  Similarity=0.472  Sum_probs=69.1

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ++++|||+|||+.+|+++|.++|+.||.|.+|.+.     +|||||+|.+.++|..|++.|||..|+|+.|.|.++..
T Consensus         6 ~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~~   83 (114)
T d2f9da1           6 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNA   83 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            46799999999999999999999999999999994     78999999999999999999999999999999999864

>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=99.85  E-value=2.1e-21  Score=127.23  Aligned_cols=72  Identities=46%  Similarity=0.789  Sum_probs=68.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .|+|||+|||+.+|+++|+++|..||.|..+.+.     ++||||+|.+.++|+.||+.|||..|.|+.|.|++++.
T Consensus        14 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~~   90 (95)
T d1x4aa1          14 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRS   90 (95)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeccC
Confidence            5799999999999999999999999999999883     78999999999999999999999999999999999875

>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=99.85  E-value=2.7e-21  Score=124.48  Aligned_cols=74  Identities=28%  Similarity=0.381  Sum_probs=67.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCCc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~~   77 (262)
                      .+|||+|||+++|+++|.++|+.||.|..+.+  .+|||||+|.++++|..|+..|||..|.|+.|.|.++++...
T Consensus         9 k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~akP~~~   84 (86)
T d2cpda1           9 KILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVDK   84 (86)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCCCC
T ss_pred             CEEEEcCCCCCCCHHHHHHhhcccceeeeEEEccccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEeccCCCC
Confidence            58999999999999999999999998766665  699999999999999999999999999999999999986543

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=1.7e-21  Score=126.58  Aligned_cols=74  Identities=39%  Similarity=0.760  Sum_probs=69.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..+|||+|||+++|+++|+++|+.||.|..|.+        ++|||||+|.++++|+.|+..|||..|+|+.|.|+++..
T Consensus         5 ~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~~   84 (90)
T d1x5sa1           5 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGK   84 (90)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEEC
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            468999999999999999999999999999987        378999999999999999999999999999999999876


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus        85 ~~   86 (90)
T d1x5sa1          85 SS   86 (90)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.85  E-value=2.1e-21  Score=124.69  Aligned_cols=69  Identities=28%  Similarity=0.564  Sum_probs=65.4

Q ss_pred             EEEcCCCCCCCHHHHHHHHhcCCceeEEEee-----------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          6 VYIGGLPYGVRERDLEKFVKGYGRIRDVILK-----------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         6 l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      |||+|||+++|+++|+++|+.||.|..|.|.           +|||||+|.+.++|+.|++.|||..|+|+.|.|+++..
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~~   80 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISER   80 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSSC
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            8999999999999999999999999999882           58999999999999999999999999999999999864

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=2.9e-21  Score=130.25  Aligned_cols=73  Identities=22%  Similarity=0.318  Sum_probs=68.1

Q ss_pred             cceEEEcCCCC-CCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPY-GVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~-~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      +++|||+|||+ .+|+++|.++|+.||+|..|.|.   +|||||+|.++++|+.|++.|||..|.|+.|.|.+++..
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~~~   78 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ   78 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            58999999965 59999999999999999999984   689999999999999999999999999999999998754

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.85  E-value=2.7e-21  Score=124.08  Aligned_cols=71  Identities=25%  Similarity=0.483  Sum_probs=65.9

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCC--ceEEEEE
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLG--ERVTVEI   71 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~   71 (262)
                      -.|+|||+|||+.+|+++|+++|+.||+|..|.+.        +|||||+|.+.++|..|++.|||..+.|  ++|.|.|
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~   84 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRL   84 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEE
Confidence            36899999999999999999999999999999983        6899999999999999999999998876  8899998


Q ss_pred             c
Q psy10320         72 A   72 (262)
Q Consensus        72 ~   72 (262)
                      +
T Consensus        85 A   85 (85)
T d1b7fa2          85 A   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            6

>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=99.85  E-value=2.7e-21  Score=123.61  Aligned_cols=67  Identities=39%  Similarity=0.547  Sum_probs=63.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTV   69 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v   69 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..|.|.        +|||||+|.+.++|+.|+..|||..|+|+.|.|
T Consensus         9 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           9 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            5799999999999999999999999999999883        679999999999999999999999999999987

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=3.1e-21  Score=121.86  Aligned_cols=72  Identities=29%  Similarity=0.450  Sum_probs=67.4

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .++||||+||+  +|+++|+++|++||.|.+|.+.  ++||||+|.+.++|..|+..|||..|+|+.|.|.|+.+.
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~   77 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ   77 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETTTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECCSS
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhccCccceeeeccCCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEecCC
Confidence            36899999995  9999999999999999999994  799999999999999999999999999999999999754

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.84  E-value=1.4e-21  Score=122.49  Aligned_cols=68  Identities=25%  Similarity=0.609  Sum_probs=64.1

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      |+|||+|||+++|+++|+++|+.||.|.++.|        ++|||||+|.++++|++|+ .+++..|+|+.|.|..+
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al-~~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVL-AQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHH-HTTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHH-HcCCCEECCeEEEEEEC
Confidence            78999999999999999999999999999988        3799999999999999999 57999999999999876

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.84  E-value=3.3e-21  Score=120.26  Aligned_cols=68  Identities=25%  Similarity=0.304  Sum_probs=64.2

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      |||||+|||+++|+++|+++|..||.|..|.|.      ++||||+|.++++|++|+ .||+..|+|+.|.|..+
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al-~~~~~~i~g~~i~V~~~   74 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAI-TKTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHH-HhcCcEECCEEEEEEEC
Confidence            799999999999999999999999999999993      679999999999999999 79999999999999864

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=1e-21  Score=126.53  Aligned_cols=71  Identities=23%  Similarity=0.294  Sum_probs=66.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ++|||+|||+++|+++|+++|+.||+|..+.+. .|||||+|.+.++|+.||..|||..|.|+.|.|.++..
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~~   72 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRV   72 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTTSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEE
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhcccccccccccceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEec
Confidence            479999999999999999999999999999984 68999999999999999999999999999999887754

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.84  E-value=8.9e-21  Score=133.40  Aligned_cols=74  Identities=30%  Similarity=0.511  Sum_probs=68.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+++|+++|+++|+.||+|..|.|.        +|||||+|.+.++|..||+.|||..|+|+.|.|.++..
T Consensus        42 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a~~  121 (139)
T d1u6fa1          42 LRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAAS  121 (139)
T ss_dssp             TSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            3689999999999999999999999999999882        68999999999999999999999999999999999875


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      ..
T Consensus       122 ~~  123 (139)
T d1u6fa1         122 GH  123 (139)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.84  E-value=7.9e-21  Score=121.25  Aligned_cols=71  Identities=21%  Similarity=0.334  Sum_probs=66.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee---CcEEEEEeCChhhHHHHHHHhcCccc-CCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK---NGFGFVEFEDYRDADDAVYELNGKSL-LGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~---~g~afV~f~~~~~a~~a~~~l~~~~~-~g~~l~v~~~~   73 (262)
                      ++||||+|||+.+|+++|.++|+.||.|..|.+.   +|||||+|.+.++|..|++.|+|..| +|+.|.|.|++
T Consensus         8 ~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1           8 NQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAK   82 (83)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTTCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECC
T ss_pred             CCEEEEECCCCCCCHHHHHhhhccCccEEEeeeecccceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEec
Confidence            5799999999999999999999999999999983   68999999999999999999999988 46899999986

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=7.4e-21  Score=125.61  Aligned_cols=71  Identities=32%  Similarity=0.576  Sum_probs=66.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .+||||+|||+.+|+++|+++|+.||+|.+|.|.        +|||||+|.++++|+.|+ .|||..|+|+.|.|.++..
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~-~l~g~~~~G~~l~V~~a~~   96 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQASQA   96 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHH-HHCCCEECCEEEEEEECCC
Confidence            3689999999999999999999999999999983        789999999999999999 6999999999999998753

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.83  E-value=4.1e-21  Score=123.40  Aligned_cols=73  Identities=25%  Similarity=0.402  Sum_probs=66.1

Q ss_pred             ccceEEEcCCCCCCC-HHHHHHHHhcCCceeEEEee---------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEE
Q psy10320          2 VGTKVYIGGLPYGVR-ERDLEKFVKGYGRIRDVILK---------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEI   71 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t-~~~l~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~   71 (262)
                      -+.+|||+|||+++| +++|+++|+.||.|..|.|.         +|||||+|.+.++|+.|+ .|||..|+|+.|.|.+
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al-~~n~~~~~gr~l~V~~   81 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QMNRSLLGNREISVSL   81 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GGTTEEETTEEEEEEE
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHH-hcCCCEECCEEEEEEE
Confidence            468999999999986 55699999999999999872         689999999999999999 5999999999999999


Q ss_pred             ccCC
Q psy10320         72 AKGI   75 (262)
Q Consensus        72 ~~~~   75 (262)
                      +.++
T Consensus        82 a~~k   85 (86)
T d2ghpa3          82 ADKK   85 (86)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            9754

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=7.1e-21  Score=126.07  Aligned_cols=72  Identities=29%  Similarity=0.595  Sum_probs=67.2

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ++|||+|||+++|+++|+++|.+||.|..+.|.        +|||||+|.+.++|+.|+ .+++..|.|+.|.|.++.++
T Consensus        21 ~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al-~~~~~~l~G~~i~V~~a~~k   99 (103)
T d1x4ba1          21 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAM-AARPHSIDGRVVEPKRAVAR   99 (103)
T ss_dssp             TEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHH-TSCSEEETTEEEEEECCSSC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHH-HhCCCeECCEEEEEEECccc
Confidence            689999999999999999999999999999983        799999999999999999 68999999999999988765


Q ss_pred             C
Q psy10320         76 D   76 (262)
Q Consensus        76 ~   76 (262)
                      .
T Consensus       100 e  100 (103)
T d1x4ba1         100 E  100 (103)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=8.5e-21  Score=122.57  Aligned_cols=71  Identities=24%  Similarity=0.525  Sum_probs=65.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+++|+++|+++|+.||.|..|.|.        +|||||+|.++++|++||+.+  ..|+|+.|.|.++..
T Consensus         8 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~~--~~l~Gr~i~v~~a~~   85 (90)
T d2cqga1           8 TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR--HMIDGRWCDCKLPNS   85 (90)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHSC--EEETTEEEEEECCCT
T ss_pred             CCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhcC--CccCCEEeEEEeCCC
Confidence            5899999999999999999999999999999983        689999999999999999754  479999999999876


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      +
T Consensus        86 k   86 (90)
T d2cqga1          86 K   86 (90)
T ss_dssp             T
T ss_pred             C
Confidence            4

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.5e-20  Score=121.42  Aligned_cols=72  Identities=17%  Similarity=0.326  Sum_probs=66.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe----eCcEEEEEeCChhhHHHHHHHhcCccc-CCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----KNGFGFVEFEDYRDADDAVYELNGKSL-LGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i----~~g~afV~f~~~~~a~~a~~~l~~~~~-~g~~l~v~~~~~   74 (262)
                      ++||||+|||+.+|+++|+++|+.||.|..+.+    .++||||+|.+.++|..|+..|+|..+ +|+.|.|.|++.
T Consensus        10 s~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk~   86 (88)
T d2adca2          10 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS   86 (88)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             CCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeecccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCCC
Confidence            579999999999999999999999999987766    378999999999999999999999987 589999999875

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.83  E-value=7.2e-21  Score=125.03  Aligned_cols=73  Identities=19%  Similarity=0.308  Sum_probs=68.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      ..+|||+|||+.+++++|+++|+.||+|..|.|. +|||||+|.++++|+.||+.|||..|.|+.|.|.++...
T Consensus        15 ~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~~~   88 (98)
T d1wg4a_          15 DFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQKDGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIRVY   88 (98)
T ss_dssp             SCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEETTTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhhcccccccccccceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEecC
Confidence            4689999999999999999999999999999995 899999999999999999999999999999999998654

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.7e-20  Score=124.60  Aligned_cols=72  Identities=32%  Similarity=0.628  Sum_probs=66.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|        ++|||||+|.+.++|+.||+.+++ .|+|+.|.|.++..
T Consensus        10 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~a~~   88 (103)
T d2cqda1          10 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAYL   88 (103)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEESTT
T ss_pred             CcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEEcCC
Confidence            368999999999999999999999999999998        378999999999999999988876 79999999999875


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        89 ~   89 (103)
T d2cqda1          89 G   89 (103)
T ss_dssp             T
T ss_pred             C
Confidence            4

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=7.4e-21  Score=126.91  Aligned_cols=73  Identities=29%  Similarity=0.565  Sum_probs=68.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .||||+|||+++|+++|+++|+.||+|..|.|.        +|||||+|.+.++|+.|++.|||..|.|+.|.|.++...
T Consensus         9 rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~~~   88 (104)
T d1p1ta_           9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASE   88 (104)
T ss_dssp             SCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTCT
T ss_pred             CEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            589999999999999999999999999999883        689999999999999999999999999999999998765


Q ss_pred             C
Q psy10320         76 D   76 (262)
Q Consensus        76 ~   76 (262)
                      .
T Consensus        89 ~   89 (104)
T d1p1ta_          89 K   89 (104)
T ss_dssp             T
T ss_pred             C
Confidence            3

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=9.4e-21  Score=118.32  Aligned_cols=66  Identities=30%  Similarity=0.640  Sum_probs=61.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEE
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEI   71 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~   71 (262)
                      +|||+|||+++|+++|.++|++||+|..|.|.        +|||||+|.++++|+.||+ +++..|.|+.|.|..
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~r   74 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPKR   74 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEECC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEECCCEEEeeE
Confidence            59999999999999999999999999999983        7999999999999999995 899999999999864

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.83  E-value=2e-20  Score=122.91  Aligned_cols=74  Identities=26%  Similarity=0.451  Sum_probs=68.4

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCC--ceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLG--ERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g--~~l~v~~~~~~   75 (262)
                      ..++|||+|||+++|+++|+++|+.||+|..|.+.  ++||||+|.+.++|+.|++.||+..|.|  ..|.|+|++..
T Consensus        16 Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak~~   93 (97)
T d1whya_          16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSG   93 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeeccccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCCCC
Confidence            46899999999999999999999999999999994  7899999999999999999999999987  48999998753

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.82  E-value=8.2e-21  Score=124.65  Aligned_cols=74  Identities=20%  Similarity=0.341  Sum_probs=69.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe---eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i---~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .++|||+|||+++|+++|+++|+.||.|..+..   .++||||+|.+.++|+.|++.|||..|+|+.|.|.++.++.
T Consensus        16 ~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~~k~   92 (96)
T d1fjca_          16 ARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKG   92 (96)
T ss_dssp             GGEEEEESCCSSCCHHHHHHHHCSEEEECCEEETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcccceeeeecCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeCCCC
Confidence            579999999999999999999999999988776   48999999999999999999999999999999999998653

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=2.4e-20  Score=123.27  Aligned_cols=73  Identities=23%  Similarity=0.454  Sum_probs=67.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhc------CcccCCceEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELN------GKSLLGERVT   68 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~------~~~~~g~~l~   68 (262)
                      ++||||+|||+++|+++|+++|+.||+|..+.+        ++|||||+|.+.++|..||+.||      |..|.|+.|.
T Consensus         8 ~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l~   87 (98)
T d1x4ha1           8 GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLK   87 (98)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEEE
Confidence            589999999999999999999999999999888        37999999999999999999887      5678999999


Q ss_pred             EEEccCC
Q psy10320         69 VEIAKGI   75 (262)
Q Consensus        69 v~~~~~~   75 (262)
                      |.++.++
T Consensus        88 v~~a~~k   94 (98)
T d1x4ha1          88 VDLAVTR   94 (98)
T ss_dssp             EECCCCC
T ss_pred             EEECCCC
Confidence            9998764

>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=99.82  E-value=2.8e-20  Score=115.98  Aligned_cols=69  Identities=19%  Similarity=0.381  Sum_probs=63.2

Q ss_pred             EEEcCCCCCCCHHHHHHHHhcCCceeEEEe--eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          6 VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         6 l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      |||+|||+++|+++|+++|++|| +..+.+  .+|||||+|.+.++|++|++.|||..+.|+.|.|+++...
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~d   71 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPTD   71 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCST
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeecccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCCC
Confidence            79999999999999999999999 444444  6899999999999999999999999999999999999653

>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=99.82  E-value=7.7e-21  Score=121.48  Aligned_cols=70  Identities=26%  Similarity=0.482  Sum_probs=64.3

Q ss_pred             EEEcCCCCCCCHHHHHHHHhcCCceeEE-Ee--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          6 VYIGGLPYGVRERDLEKFVKGYGRIRDV-IL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         6 l~V~nl~~~~t~~~l~~~F~~~G~v~~v-~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      |||+|||+++|+++|+++|+.||.|..+ .+        ++|||||+|.++++|+.|++.|+|..|.|+.|.|.++.++
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~~k   79 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKK   79 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCCC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEecCC
Confidence            8999999999999999999999998654 44        2689999999999999999999999999999999998754

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=2.1e-20  Score=119.30  Aligned_cols=70  Identities=26%  Similarity=0.532  Sum_probs=64.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      ..+|||+|||+++|+++|.++|+.||.|..|.|        ++|||||+|.++++|+.|+ .+++..|+|+.|.|..+.
T Consensus         6 ~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai-~~~~~~i~Gr~i~V~~A~   83 (84)
T d1l3ka1           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAM-NARPHKVDGRVVEPKRAV   83 (84)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHH-HTCSCEETTEECEEEECC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHH-HhCCCEECCEEEEEEeee
Confidence            368999999999999999999999999999988        3789999999999999999 579999999999998764

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=6.7e-21  Score=122.93  Aligned_cols=73  Identities=25%  Similarity=0.375  Sum_probs=66.8

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe---eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i---~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~~   76 (262)
                      .+++|||+|||+.+|+++|+++|++||+|.+|.+   .++||||+|.+.++|+.|+.  ++..|+|+.|.|.++.++.
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~~~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~a~~k~   79 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNAEPKH   79 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSCCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECCCCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeeccCceEEEEECCHHHHHHHHh--CCCEECCEEeEEEeCCCCC
Confidence            4689999999999999999999999999999988   47999999999999999984  7789999999999987543

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=2.4e-20  Score=118.01  Aligned_cols=69  Identities=28%  Similarity=0.530  Sum_probs=64.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      +.+|||+|||+++|+++|+++|+.||.|..+.+.        +|||||+|.++++|++|+ .|+|..|+|+.|.|..+
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al-~~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-IQKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHH-HCSCCEETTEECEEEEC
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHH-HhCCCEECCEEEEEEEC
Confidence            4689999999999999999999999999999883        689999999999999999 68999999999999865

>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=99.82  E-value=3.7e-20  Score=120.26  Aligned_cols=74  Identities=23%  Similarity=0.472  Sum_probs=68.2

Q ss_pred             ccceEEEcCCCCCCCHHHHHH----HHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEK----FVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~----~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .++||||+|||+.+|++||++    +|+.||+|..|.+.     +|||||+|.+.++|..|+..|||..|+|+.|.|.++
T Consensus         2 P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~a   81 (91)
T d1nu4a_           2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA   81 (91)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeeeccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            368999999999999999865    57999999999984     799999999999999999999999999999999999


Q ss_pred             cCC
Q psy10320         73 KGI   75 (262)
Q Consensus        73 ~~~   75 (262)
                      +.+
T Consensus        82 k~~   84 (91)
T d1nu4a_          82 KTD   84 (91)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            764

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=5.3e-21  Score=126.72  Aligned_cols=72  Identities=24%  Similarity=0.445  Sum_probs=66.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .|+|||+|||+++|+++|+++|+.||+|..+.+.       +|||||+|.+.++|+.||..|||..|.|+++.|.++.+
T Consensus        18 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~~P   96 (101)
T d1x5oa1          18 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEP   96 (101)
T ss_dssp             TTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCCCC
Confidence            5799999999999999999999999999988873       68999999999999999999999999999988876653

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1.1e-20  Score=125.48  Aligned_cols=73  Identities=29%  Similarity=0.414  Sum_probs=66.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe----------------eCcEEEEEeCChhhHHHHHHHhcCcccCCce
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----------------KNGFGFVEFEDYRDADDAVYELNGKSLLGER   66 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i----------------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~   66 (262)
                      .++|||+|||+.+|+++|+++|+.||.|..+.+                .+|||||+|.++++|..||+.|||..|+|+.
T Consensus         8 ~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~   87 (101)
T d2cpea1           8 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSK   87 (101)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECCEE
Confidence            579999999999999999999999998854332                2589999999999999999999999999999


Q ss_pred             EEEEEccCC
Q psy10320         67 VTVEIAKGI   75 (262)
Q Consensus        67 l~v~~~~~~   75 (262)
                      |.|.++...
T Consensus        88 i~V~~a~~~   96 (101)
T d2cpea1          88 LKVSLARKK   96 (101)
T ss_dssp             CEEECSSCC
T ss_pred             EEEEEcCCC
Confidence            999999764

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=8.6e-20  Score=121.46  Aligned_cols=77  Identities=23%  Similarity=0.280  Sum_probs=69.0

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhc--CcccCCceEEEEEccCCCc
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELN--GKSLLGERVTVEIAKGIDR   77 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~--~~~~~g~~l~v~~~~~~~~   77 (262)
                      .+.+|||+|||+.+|+++|.++|+.||.|..|.+.  +++|||+|.++++|+.|+..|+  +..+.|+.|.|.|++....
T Consensus        14 ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s~~~~~   93 (104)
T d1wexa_          14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSKRI   93 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEecceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEcCCCcc
Confidence            35789999999999999999999999999999994  7999999999999999998874  5678999999999976543


Q ss_pred             c
Q psy10320         78 S   78 (262)
Q Consensus        78 ~   78 (262)
                      .
T Consensus        94 ~   94 (104)
T d1wexa_          94 T   94 (104)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=9.7e-21  Score=117.86  Aligned_cols=67  Identities=21%  Similarity=0.522  Sum_probs=62.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      +|||+|||+++|+++|+++|+.||+|.+|.|.        +|||||+|.+.++|++|| .+++..++|+.|.|..+
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al-~~~~~~i~g~~i~vk~A   75 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM-EKKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHT-TCSSCCBTTBCCEEECC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHH-hhCCCEECCEEeEEEEC
Confidence            69999999999999999999999999999983        799999999999999999 56778999999998754

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=3.3e-20  Score=118.65  Aligned_cols=71  Identities=21%  Similarity=0.423  Sum_probs=66.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..+|||+|||+.+|+++|.++|+.||+|..|.|.       +|||||+|.++++|+.|| .+++..|.|+.|.|.+..+
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al-~~~~~~~~g~~l~v~~~~d   83 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV-ETPGQKYKETDLLILFKDD   83 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHH-TCCCCEETTEECEEEEGGG
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHH-HHCCCEECCEEEEEEEcCC
Confidence            5799999999999999999999999999999983       689999999999999999 6899999999999998754

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=1.7e-20  Score=117.59  Aligned_cols=67  Identities=27%  Similarity=0.581  Sum_probs=62.8

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      +|||+|||+++|+++|+++|+.||.|..+.+.        ++||||+|.+.++|+.|+ .|||..|+|+.|.|++|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al-~~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVC-EIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHH-HCSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHH-hcCCCEECCeEEEEEEC
Confidence            59999999999999999999999999998872        789999999999999999 59999999999999875

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.81  E-value=6.3e-21  Score=123.63  Aligned_cols=71  Identities=27%  Similarity=0.485  Sum_probs=65.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ..+|||+|||+.+|+++|+++|+.||.|..+.|       ++|||||+|.+.++|+.|| .|||..|+|+.|.|.+++.
T Consensus        13 ~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al-~~~g~~~~g~~i~V~~ak~   90 (91)
T d1fjeb1          13 PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKG   90 (91)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHH-HGGGEEETTEEEEEECCCC
T ss_pred             CcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHH-hcCCcEECCEEEEEEecCC
Confidence            458999999999999999999999999887766       3799999999999999999 5999999999999999874

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=1.1e-19  Score=117.28  Aligned_cols=75  Identities=15%  Similarity=0.213  Sum_probs=68.3

Q ss_pred             ccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHh--cCcccCCceEEEEEccCCC
Q psy10320          2 VGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYEL--NGKSLLGERVTVEIAKGID   76 (262)
Q Consensus         2 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l--~~~~~~g~~l~v~~~~~~~   76 (262)
                      .+.+|||+|||+.+|+++|+++|+.||.|..+.+.  +++|||+|.++++|+.|++.|  ++..++|+.|.|.|++.+.
T Consensus         7 Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~sk~~~   85 (88)
T d2cq1a1           7 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHKE   85 (88)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcccccccccccccceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEECCCCC
Confidence            36799999999999999999999999999999985  799999999999999999865  5679999999999997543

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=1.1e-20  Score=125.85  Aligned_cols=74  Identities=24%  Similarity=0.357  Sum_probs=68.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      ++||||+|||+.+|+++|.++|..||.|..+.+        .+|||||+|.++++|+.|++.|||..|.|+.|.|.|++.
T Consensus        18 s~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak~   97 (102)
T d2cpxa1          18 NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGKN   97 (102)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCCC
Confidence            579999999999999999999999999887766        268999999999999999999999999999999999986


Q ss_pred             CC
Q psy10320         75 ID   76 (262)
Q Consensus        75 ~~   76 (262)
                      +.
T Consensus        98 k~   99 (102)
T d2cpxa1          98 KK   99 (102)
T ss_dssp             CS
T ss_pred             cc
Confidence            53

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=1.4e-19  Score=120.72  Aligned_cols=72  Identities=36%  Similarity=0.660  Sum_probs=63.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe---------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL---------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i---------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      .++|||+|||+.+|+++|+++|+.|| |..+.+         .+|||||+|.++++|++|+ .||+..|.|+.|.|.++.
T Consensus        15 ~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~gr~l~V~~a~   92 (104)
T d1wi8a_          15 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVAD   92 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHH-HcCCCEECCEEEEEEECC
Confidence            47999999999999999999999999 556655         2689999999999998777 799999999999999987


Q ss_pred             CCC
Q psy10320         74 GID   76 (262)
Q Consensus        74 ~~~   76 (262)
                      ...
T Consensus        93 ~~~   95 (104)
T d1wi8a_          93 QAQ   95 (104)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            643

>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=99.80  E-value=3e-20  Score=119.91  Aligned_cols=68  Identities=18%  Similarity=0.376  Sum_probs=63.0

Q ss_pred             cceEEEcCCCCCCCHHHH---HHHHhcCCceeEEEee-----------CcEEEEEeCChhhHHHHHHHhcCcccCCceEE
Q psy10320          3 GTKVYIGGLPYGVRERDL---EKFVKGYGRIRDVILK-----------NGFGFVEFEDYRDADDAVYELNGKSLLGERVT   68 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l---~~~F~~~G~v~~v~i~-----------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~   68 (262)
                      .++|||+|||+.+|+++|   .++|++||+|..|.|.           .|||||+|.++++|..|++.|||..|+|+.|.
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lk   87 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLK   87 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEEE
Confidence            468999999999999999   6789999999999983           37999999999999999999999999999998


Q ss_pred             EE
Q psy10320         69 VE   70 (262)
Q Consensus        69 v~   70 (262)
                      |.
T Consensus        88 vS   89 (89)
T d2cpia1          88 AS   89 (89)
T ss_dssp             EE
T ss_pred             EC
Confidence            73

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=1.1e-19  Score=119.26  Aligned_cols=74  Identities=28%  Similarity=0.443  Sum_probs=66.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCc-eeEEEee---------CcEEEEEeCChhhHHHHHHHhcC--cccCCceEEEE
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGR-IRDVILK---------NGFGFVEFEDYRDADDAVYELNG--KSLLGERVTVE   70 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~-v~~v~i~---------~g~afV~f~~~~~a~~a~~~l~~--~~~~g~~l~v~   70 (262)
                      +|+|||+|||+.+|+++|+++|+.||+ |..|.|.         +|||||+|.++++|..|++.|++  ..+.|+.|.|.
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~   80 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVD   80 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEE
Confidence            489999999999999999999999996 8888882         68999999999999999999875  45679999999


Q ss_pred             EccCCC
Q psy10320         71 IAKGID   76 (262)
Q Consensus        71 ~~~~~~   76 (262)
                      |+.+..
T Consensus        81 ~A~p~~   86 (96)
T d2disa1          81 WAEPEI   86 (96)
T ss_dssp             ESCSSC
T ss_pred             EcCCCC
Confidence            997643

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=1e-19  Score=122.00  Aligned_cols=73  Identities=16%  Similarity=0.294  Sum_probs=66.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe----eCcEEEEEeCChhhHHHHHHHhcCccc--CCceEEEEEccCCC
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL----KNGFGFVEFEDYRDADDAVYELNGKSL--LGERVTVEIAKGID   76 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i----~~g~afV~f~~~~~a~~a~~~l~~~~~--~g~~l~v~~~~~~~   76 (262)
                      .+|||+|||+.+|+++|+++|++||.|..|.|    .+|+|||+|.++++|+.||..|||..|  .+..|.|.+++...
T Consensus         8 ~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~~~~   86 (108)
T d2adba1           8 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTS   86 (108)
T ss_dssp             EEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECSSCS
T ss_pred             EEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeCCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecCCcc
Confidence            58999999999999999999999999999988    378999999999999999999999988  47789999887643

>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=99.79  E-value=1.6e-19  Score=119.56  Aligned_cols=77  Identities=16%  Similarity=0.141  Sum_probs=68.3

Q ss_pred             ccceEEEcCCCCCC-CH----HHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          2 VGTKVYIGGLPYGV-RE----RDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         2 ~~~~l~V~nl~~~~-t~----~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .+++|||+||+..+ ++    ++|+++|+.||.|..+.+.  ++||||+|.++++|..|+..|||..|+|+.|.|.|+..
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~a~~   83 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQT   83 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCCC
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEecCCCEEEEEECCHHHHHHHHHHhcccccCCCEeEEeeccc
Confidence            46899999999876 33    5699999999999999995  68999999999999999999999999999999999976


Q ss_pred             CCcc
Q psy10320         75 IDRS   78 (262)
Q Consensus        75 ~~~~   78 (262)
                      ....
T Consensus        84 ~~~~   87 (104)
T d1weya_          84 LHIG   87 (104)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            5443

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.79  E-value=1.1e-19  Score=119.65  Aligned_cols=74  Identities=24%  Similarity=0.391  Sum_probs=67.7

Q ss_pred             ccceEEEcCCCCC-CCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHH--HhcCcccCCceEEEEEccCC
Q psy10320          2 VGTKVYIGGLPYG-VRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVY--ELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         2 ~~~~l~V~nl~~~-~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~--~l~~~~~~g~~l~v~~~~~~   75 (262)
                      .+++|||+|||.. +|+++|.++|+.||.|..|.+.  +|+|||+|.+.++|..|++  .+++..|+|+.|.|.++..+
T Consensus        17 ~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~~~   95 (99)
T d1x4fa1          17 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEKY   95 (99)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECSC
T ss_pred             CCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeecCCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcCCc
Confidence            4679999999985 8999999999999999999994  8999999999999999997  57888999999999999754

>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=99.78  E-value=4.7e-19  Score=112.79  Aligned_cols=76  Identities=20%  Similarity=0.362  Sum_probs=70.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      +++|||+|||.++++++|.++|++||.|..+.+.     +.++++|||+|.+.++|+.|+..|||..+.|+.|.|.+++|
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~p   81 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARP   81 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            4589999999999999999999999999999876     34578999999999999999999999999999999999976


Q ss_pred             C
Q psy10320        188 R  188 (262)
Q Consensus       188 ~  188 (262)
                      .
T Consensus        82 g   82 (82)
T d1b7fa1          82 G   82 (82)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=5e-20  Score=114.30  Aligned_cols=63  Identities=32%  Similarity=0.578  Sum_probs=59.2

Q ss_pred             EEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEE
Q psy10320          6 VYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVT   68 (262)
Q Consensus         6 l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~   68 (262)
                      |||+|||+++|+++|+++|+.||.|..+.+        .+|+|||+|.+.++|+.|++.|||..|.|+.|+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            899999999999999999999999999887        379999999999999999999999999998763

>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=99.78  E-value=1.3e-18  Score=113.67  Aligned_cols=79  Identities=24%  Similarity=0.349  Sum_probs=71.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc--cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH--KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ....++|||+|||..+++++|+++|+.||.|..+.+.  ...+++|||+|.+.++|..||+.|||..|.|+.|.|.++++
T Consensus        11 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~~   90 (95)
T d1x4aa1          11 GNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRS   90 (95)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeccC
Confidence            3446789999999999999999999999999988876  45689999999999999999999999999999999999876


Q ss_pred             C
Q psy10320        188 R  188 (262)
Q Consensus       188 ~  188 (262)
                      .
T Consensus        91 ~   91 (95)
T d1x4aa1          91 G   91 (95)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.78  E-value=2.5e-18  Score=113.35  Aligned_cols=78  Identities=23%  Similarity=0.307  Sum_probs=71.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .++|||+|||+.+++++|+++|.+||.|..+.+.     +.++|+|||+|.+.++|..||+.|||..|.|+.|.|..+.+
T Consensus         8 ~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~~   87 (99)
T d1whwa_           8 SGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTI   87 (99)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECCC
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            5589999999999999999999999999999886     45688999999999999999999999999999999999887


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      +..
T Consensus        88 ~~~   90 (99)
T d1whwa_          88 KKE   90 (99)
T ss_dssp             CST
T ss_pred             CCc
Confidence            643

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=6.4e-19  Score=117.23  Aligned_cols=74  Identities=18%  Similarity=0.328  Sum_probs=66.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+++|++||+++|..||.|..+.+        .+|+|||+|.++++|++|+ .+|+..|.|+.|.|.++..
T Consensus        15 ~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~-~~~~~~i~gR~i~V~~~~~   93 (104)
T d1wg5a_          15 DGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKAL-KKHKERIGHRYIEIFKSSR   93 (104)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHH-TTTTCCSSSSCCEEEEECT
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHH-hhCCCEEcceEEEEEECCH
Confidence            358999999999999999999999998877544        3799999999999999999 6999999999999999986


Q ss_pred             CCc
Q psy10320         75 IDR   77 (262)
Q Consensus        75 ~~~   77 (262)
                      ...
T Consensus        94 ~~~   96 (104)
T d1wg5a_          94 AEV   96 (104)
T ss_dssp             TTS
T ss_pred             HHh
Confidence            643

>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=99.78  E-value=1.1e-19  Score=116.74  Aligned_cols=70  Identities=27%  Similarity=0.455  Sum_probs=63.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeE-EEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRD-VIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~-v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      .++|||+|||+++|++||+++|..||.|.. +.+       ++|+|||+|.+.++|+.|+..||+..+.|+.|.|.++
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   86 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            468999999999999999999999998765 333       3789999999999999999999999999999999874

>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=99.77  E-value=2.5e-18  Score=111.81  Aligned_cols=77  Identities=29%  Similarity=0.373  Sum_probs=71.6

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .++|||+|||..+++++|+++|++||.|..+.+.     +..+|||||+|.+.++|..|+..|||..+.|+.|+|.++.+
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~~   88 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKASA   88 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETTT
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            4699999999999999999999999999999875     45688999999999999999999999999999999999987


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      +.
T Consensus        89 ~~   90 (93)
T d1x5ua1          89 HN   90 (93)
T ss_dssp             TS
T ss_pred             CC
Confidence            64

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=2.2e-19  Score=115.42  Aligned_cols=72  Identities=42%  Similarity=0.677  Sum_probs=66.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .|||+|||..+++++|+++|++||.|..+.+..  .|+|||+|.+.++|+.||..|||..|.|+.|.|.+..+.
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~--~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~~~   73 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR--DGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVK   73 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEEEEEECT--TSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEE
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhcccccccccc--cceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEecC
Confidence            699999999999999999999999999998864  489999999999999999999999999999988776544

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=5.3e-19  Score=117.15  Aligned_cols=72  Identities=25%  Similarity=0.323  Sum_probs=64.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~~   75 (262)
                      +.+|||+|||+++|++||+++|..||.+ .|.+       .+|||||+|.++++|++|+ .||+..|+|+.|.|.++...
T Consensus        15 ~~~v~v~nLp~~~te~dl~~~F~~~~~~-~v~~~~~~~g~~~G~afVeF~~~~~a~~Al-~~~~~~i~gR~I~V~~s~~~   92 (102)
T d1weza_          15 GHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAM-AKDKANMQHRYVELFLNSTA   92 (102)
T ss_dssp             SCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHH-TTSSCCSSSSCCEEEEECCC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHhccCcc-eeeeEEecCCcceEEEEEEECCHHHHHHHH-HcCCCEECCEEEEEEEcCCC
Confidence            4689999999999999999999999855 4444       3789999999999999999 59999999999999998865


Q ss_pred             C
Q psy10320         76 D   76 (262)
Q Consensus        76 ~   76 (262)
                      .
T Consensus        93 ~   93 (102)
T d1weza_          93 G   93 (102)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.77  E-value=1.6e-18  Score=112.69  Aligned_cols=77  Identities=22%  Similarity=0.210  Sum_probs=70.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..++|||+|||..+++++|.++|++||+|..+.+.     +.++|+|||+|.+.++|..|++.|||..++|+.|.|.++.
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a~   85 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDA   85 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            46799999999999999999999999999999876     3457899999999999999999999999999999999986


Q ss_pred             CC
Q psy10320        187 PR  188 (262)
Q Consensus       187 ~~  188 (262)
                      ..
T Consensus        86 ~~   87 (93)
T d1h2vz_          86 GF   87 (93)
T ss_dssp             CC
T ss_pred             CC
Confidence            44

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.77  E-value=6.3e-19  Score=113.47  Aligned_cols=73  Identities=22%  Similarity=0.272  Sum_probs=66.4

Q ss_pred             cceEEEcCCCCC-CCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHh--cCcccCCceEEEEEccCC
Q psy10320          3 GTKVYIGGLPYG-VRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYEL--NGKSLLGERVTVEIAKGI   75 (262)
Q Consensus         3 ~~~l~V~nl~~~-~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l--~~~~~~g~~l~v~~~~~~   75 (262)
                      +.+|||+|||.. +|++||.++|+.||+|..|.+.  +++|||+|++.++|..|+..|  ++..+.|++|.|.|++..
T Consensus         8 sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~s~~~   85 (89)
T d1x4da1           8 RRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQKY   85 (89)
T ss_dssp             CCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECCC
T ss_pred             CcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECCCc
Confidence            568999999986 8999999999999999999994  789999999999999999866  577899999999999754

>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=99.77  E-value=1.3e-18  Score=110.79  Aligned_cols=74  Identities=20%  Similarity=0.406  Sum_probs=69.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .+|||+|||..+++++|.++|++||.|..+.+.     +..+|+|||+|.+.++|+.|+..|+|..+.|+.|.|.+++|
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~AkP   81 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeeC
Confidence            479999999999999999999999999998876     35678999999999999999999999999999999999876

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=1.3e-18  Score=112.54  Aligned_cols=78  Identities=17%  Similarity=0.250  Sum_probs=71.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..++|||+|||..+++++|.++|++||.|..+.+.     +.++|+|||+|.+.++|..|++.|+|..++|+.|.|.+++
T Consensus         7 ~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~ak   86 (90)
T d2cq0a1           7 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAK   86 (90)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEeee
Confidence            35689999999999999999999999999999876     3457899999999999999999999999999999999998


Q ss_pred             CCC
Q psy10320        187 PRG  189 (262)
Q Consensus       187 ~~~  189 (262)
                      |+.
T Consensus        87 p~~   89 (90)
T d2cq0a1          87 PST   89 (90)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            764

>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=99.76  E-value=2.2e-18  Score=114.09  Aligned_cols=78  Identities=15%  Similarity=0.310  Sum_probs=71.0

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .++|||+|||..+++++|.++|+.||.|..+.+.     +..+|+|||+|.+.++|..||+.|||..+.|+.|.|.++++
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~~   97 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRS   97 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeCC
Confidence            4689999999999999999999999998888765     34578999999999999999999999999999999999987


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      +..
T Consensus        98 k~~  100 (102)
T d2cpza1          98 KND  100 (102)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            654

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.76  E-value=4.6e-18  Score=110.72  Aligned_cols=79  Identities=24%  Similarity=0.427  Sum_probs=71.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc------cCCCceEEEEecCHHHHHHHHHHh-CCcccCCceEEEe
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH------KRHRNEGVVEFESSSDMKKALDKL-DNAELNGRRIRLI  183 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~~~~~~v~f~~~~~a~~a~~~l-~g~~~~g~~~~v~  183 (262)
                      ....+|||+|||..+++++|.++|++||.|..+.+.      +.++|+|||+|.+.++|..|+..| ||..+.|+.|.|.
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~   85 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLE   85 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEE
Confidence            345689999999999999999999999999999885      346899999999999999999998 8999999999999


Q ss_pred             ecCCCC
Q psy10320        184 EDKPRG  189 (262)
Q Consensus       184 ~~~~~~  189 (262)
                      ++.+..
T Consensus        86 ~A~~~~   91 (94)
T d2cpha1          86 WADSEV   91 (94)
T ss_dssp             ECCCCC
T ss_pred             EcCCCC
Confidence            997653

>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=99.76  E-value=5e-18  Score=110.40  Aligned_cols=77  Identities=29%  Similarity=0.442  Sum_probs=71.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc---cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH---KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      ..+|||+|||..+++++|.++|++||+|..+.+.   ..++++|||+|.+.++|..|+..|||..++|+.|.|.+++++.
T Consensus        11 ~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~~r~   90 (93)
T d2cq3a1          11 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATARV   90 (93)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCSSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCcCC
Confidence            4589999999999999999999999999999876   3357899999999999999999999999999999999998764

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=1.4e-18  Score=112.15  Aligned_cols=77  Identities=30%  Similarity=0.410  Sum_probs=71.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|+++|++||+|..+.+.     +.++|+|||+|.+.++|..|+..|||..++|+.|.|.++.|
T Consensus         5 ~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~p   84 (89)
T d2cqba1           5 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAKP   84 (89)
T ss_dssp             CSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            4589999999999999999999999999998876     46789999999999999999999999999999999999987


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      +.
T Consensus        85 ~~   86 (89)
T d2cqba1          85 MR   86 (89)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>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=99.76  E-value=1.5e-18  Score=111.64  Aligned_cols=77  Identities=18%  Similarity=0.250  Sum_probs=70.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|.++|++||.|..+.+.     +.++|+|||+|.+.++|+.|+..|||..+.|+.|.|.++.+
T Consensus         7 ~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a~~   86 (88)
T d1rk8a_           7 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCFV   86 (88)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEecC
Confidence            5689999999999999999999999999998876     34578999999999999999999999999999999999876


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      ++
T Consensus        87 kG   88 (88)
T d1rk8a_          87 KG   88 (88)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.76  E-value=5.1e-18  Score=107.98  Aligned_cols=74  Identities=15%  Similarity=0.162  Sum_probs=69.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccC-CceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELN-GRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~-g~~~~v~~~~  186 (262)
                      +++|||+|||..+++++|.++|++||.|..+.+....+++|||+|.+.++|..|+..|+|..+. |+.|.|.+++
T Consensus         8 ~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1           8 NQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAK   82 (83)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTTCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECC
T ss_pred             CCEEEEECCCCCCCHHHHHhhhccCccEEEeeeecccceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEec
Confidence            6799999999999999999999999999999998878899999999999999999999999885 6889999875

>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=99.76  E-value=1.4e-18  Score=110.25  Aligned_cols=74  Identities=15%  Similarity=0.312  Sum_probs=66.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ++|||+|||..+++++|.++|+.||.|..+.+.     +.++|+|||+|.+.++|..|++.|||..++|+.|.|..+.|
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~P   80 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNP   80 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccC
Confidence            689999999999999999999999998766543     56789999999999999999999999999999999999876

>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=99.75  E-value=1.8e-18  Score=111.61  Aligned_cols=76  Identities=21%  Similarity=0.365  Sum_probs=70.2

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc---cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH---KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      .+|||+|||..+++++|.++|++||.|..+.+.   ...+|+|||+|++.++|..|++.|||..++|+.|.|.++.++.
T Consensus         9 ~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~~~~   87 (89)
T d1cvja2           9 GNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSRK   87 (89)
T ss_dssp             TEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECCCTT
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCCC
Confidence            479999999999999999999999999999877   3357899999999999999999999999999999999998754

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.75  E-value=1.1e-18  Score=114.36  Aligned_cols=82  Identities=27%  Similarity=0.479  Sum_probs=74.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      ....+|||+|||..+++++|.++|++||.|..+...+..+++|||+|.+.++|..|++.|||..++|+.|.|.++.+++.
T Consensus        14 ~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~~k~~   93 (96)
T d1fjca_          14 RAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKGG   93 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSSSCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcccceeeeecCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeCCCCC
Confidence            33679999999999999999999999999888777777899999999999999999999999999999999999988765


Q ss_pred             CC
Q psy10320        191 GR  192 (262)
Q Consensus       191 ~~  192 (262)
                      .+
T Consensus        94 ~r   95 (96)
T d1fjca_          94 TR   95 (96)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=7.1e-18  Score=109.00  Aligned_cols=77  Identities=19%  Similarity=0.224  Sum_probs=70.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc---cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH---KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      ..+|||+|||..+++++|.++|+.||.|..+.+.   ...+++|||+|.+.++|..|+..|+|..+.|+.|+|.++.+..
T Consensus         8 ~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~~~~   87 (90)
T d2cqia1           8 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATTPS   87 (90)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCCTT
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCCCC
Confidence            4589999999999999999999999999999876   3357899999999999999999999999999999999987643

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=2.6e-19  Score=119.03  Aligned_cols=72  Identities=22%  Similarity=0.328  Sum_probs=64.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeE-EEe-------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRD-VIL-------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~-v~i-------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|..||.|.. +.+       ++|+|||+|.++++|+.|| .||+..|+|+.|.|.++..
T Consensus         8 ~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al-~~n~~~i~gr~i~V~~~~~   86 (103)
T d2cpya1           8 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSE-RLHRKKLNGREAFVHVVTL   86 (103)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHG-GGCSEEETTEEEEEEEECH
T ss_pred             ceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHH-hcCCCeECCcEEEEEECCH
Confidence            468999999999999999999999998865 444       3899999999999999999 5999999999999998764


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        87 ~   87 (103)
T d2cpya1          87 E   87 (103)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.75  E-value=6.2e-18  Score=110.79  Aligned_cols=75  Identities=15%  Similarity=0.271  Sum_probs=68.4

Q ss_pred             CCCceEEEcCCC-CCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        111 RSDHRLIVENLS-SRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       111 ~~~~~l~v~nl~-~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ....+|||+||| ..+++++|+++|++||.|..+.+   .++||||+|++.++|.+|++.|||..|.|+.|.|..+.+.
T Consensus        13 ~~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i---~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~   88 (98)
T d1wf2a_          13 SMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV---HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAAEP   88 (98)
T ss_dssp             SCCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEE---ETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETTSC
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEE---eCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            345689999997 57889999999999999999998   5799999999999999999999999999999999998754

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.75  E-value=2.7e-17  Score=115.36  Aligned_cols=79  Identities=18%  Similarity=0.315  Sum_probs=71.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ....+|||+|||.++++++|.++|++||.|..+.+.     +..+|||||+|.+.++|..||+.|||.+|+|+.|.|.++
T Consensus        40 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a  119 (139)
T d1u6fa1          40 DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALA  119 (139)
T ss_dssp             TTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            345689999999999999999999999999998876     345789999999999999999999999999999999998


Q ss_pred             CCCC
Q psy10320        186 KPRG  189 (262)
Q Consensus       186 ~~~~  189 (262)
                      .++.
T Consensus       120 ~~~~  123 (139)
T d1u6fa1         120 ASGH  123 (139)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            7654

>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=99.74  E-value=6.2e-18  Score=114.52  Aligned_cols=76  Identities=18%  Similarity=0.277  Sum_probs=70.3

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc--cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH--KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .+.+|||+|||..+++++|.++|++||.|..+.+.  +..+|+|||+|.+.++|..|++.|||..|+|+.|.|.++.+
T Consensus         6 ~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~~   83 (114)
T d2f9da1           6 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNA   83 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            46699999999999999999999999999999886  45689999999999999999999999999999999988754

>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=99.74  E-value=5.4e-18  Score=106.46  Aligned_cols=72  Identities=28%  Similarity=0.416  Sum_probs=67.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      .|||+|||+.+++++|.++|++||.|..+.+.    +..+|+|||+|.+.++|..|++.|||..+.|+.|.|..+.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            59999999999999999999999999999886    4567899999999999999999999999999999998864

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=5e-18  Score=109.88  Aligned_cols=78  Identities=26%  Similarity=0.397  Sum_probs=70.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|.++|++||.|..+.+.     +.++|+|||+|.+.++|..|+..|+|..++|+.|.|..+.+
T Consensus         5 ~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~~   84 (90)
T d1x5sa1           5 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAGK   84 (90)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEEC
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            4589999999999999999999999999888755     45688999999999999999999999999999999999876


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      ...
T Consensus        85 ~~~   87 (90)
T d1x5sa1          85 SSD   87 (90)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>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=99.74  E-value=4e-18  Score=108.58  Aligned_cols=70  Identities=31%  Similarity=0.437  Sum_probs=65.1

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEE
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRL  182 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v  182 (262)
                      .++|||+|||..+++++|+++|++||.|..+.+.     +.++|+|||+|.+.++|..|+..|||..++|+.|+|
T Consensus         9 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           9 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            5689999999999999999999999999998876     345789999999999999999999999999999986

>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=99.74  E-value=4.2e-18  Score=107.56  Aligned_cols=72  Identities=21%  Similarity=0.343  Sum_probs=67.4

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      .|||+|||..+++++|.++|++||+|..+.+.     +.++|+|||+|.++++|..|++.|+|..+.|+.|+|.+++
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~   78 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            69999999999999999999999999999887     3457899999999999999999999999999999999874

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=5.9e-18  Score=108.07  Aligned_cols=76  Identities=12%  Similarity=0.236  Sum_probs=70.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      ..|||+|||..+++++|.++|++||+|..+.+.     +.++|+|||+|.++++|..|+..|+|..+.|+.|.|.++.+.
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~~~   81 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRASVG   81 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            379999999999999999999999999999886     456899999999999999999999999999999999999765


Q ss_pred             C
Q psy10320        189 G  189 (262)
Q Consensus       189 ~  189 (262)
                      .
T Consensus        82 ~   82 (85)
T d2u2fa_          82 A   82 (85)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=1.3e-17  Score=108.84  Aligned_cols=75  Identities=11%  Similarity=0.210  Sum_probs=70.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .++|||+|||..+++++|.++|++||.|..+.+... +|+|||+|.+.++|..|+..|+|..+.|+.|+|.++++.
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~-kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak~~   92 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE-KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKES   92 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT-TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec-ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCC
Confidence            458999999999999999999999999999998754 799999999999999999999999999999999998664

>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=99.73  E-value=1.7e-17  Score=106.31  Aligned_cols=77  Identities=21%  Similarity=0.247  Sum_probs=69.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~  190 (262)
                      ..+|||+|||..+++++|.++|++||.|..+.+. ..+|+|||+|.+.++|..|+..|||..+.|+.|.|.+++|...
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~-~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~akP~~~   84 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK-KIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVDK   84 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEE-ECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCCCCCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEc-cccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEeccCCCC
Confidence            4689999999999999999999999988766653 4689999999999999999999999999999999999987643

>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=99.72  E-value=6.2e-18  Score=107.71  Aligned_cols=75  Identities=15%  Similarity=0.211  Sum_probs=66.9

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCceEEE-ecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        116 LIVENLSSRVSWQDLKDFMRQVGEVCYA-DAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~~~g~i~~~-~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      |||+|||.++++++|.++|++||.|..+ .+.     +.++|+|||+|.+.++|..|++.|+|..++|+.|.|..+.++.
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~~k~   80 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKKD   80 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCCCC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEecCCC
Confidence            7999999999999999999999988553 333     4568999999999999999999999999999999999998764


Q ss_pred             C
Q psy10320        190 G  190 (262)
Q Consensus       190 ~  190 (262)
                      .
T Consensus        81 ~   81 (83)
T d1x5ta1          81 S   81 (83)
T ss_dssp             C
T ss_pred             c
Confidence            4

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=2.4e-17  Score=106.09  Aligned_cols=75  Identities=24%  Similarity=0.326  Sum_probs=67.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-cCCCceEEEEecCHHHHHHHHHHhCCccc-CCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-KRHRNEGVVEFESSSDMKKALDKLDNAEL-NGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~l~g~~~-~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|.++|+.||.|..+.+. +..+++|||+|.+.++|..|+..|+|..+ +|+.|+|.++++
T Consensus        10 s~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk~   86 (88)
T d2adca2          10 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS   86 (88)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             CCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeecccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCCC
Confidence            5699999999999999999999999998776554 56689999999999999999999999988 589999999865

>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=99.72  E-value=1.2e-17  Score=106.87  Aligned_cols=72  Identities=22%  Similarity=0.375  Sum_probs=66.2

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCceEEEeccc--------CCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHK--------RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~--------~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      |||+|||..+++++|.++|++||.|..+.+..        .++|+|||+|.+.++|..|+..|||..++|+.|.|..+.+
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~~   80 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISER   80 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSSC
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            79999999999999999999999999988761        2468999999999999999999999999999999998754

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.72  E-value=1.9e-17  Score=108.44  Aligned_cols=78  Identities=40%  Similarity=0.627  Sum_probs=70.4

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      .....+|||+|||..+++++|.++|++||.|..+.+.  ..++|||+|.+.++|..||+.|||..|.|+.|.|.+.+.+.
T Consensus        12 ~~~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~--~~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~~~~   89 (98)
T d1wg4a_          12 RRSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQ--KDGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIRVYP   89 (98)
T ss_dssp             CSCSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEE--TTTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEEEEC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhhccccccccc--ccceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEecCC
Confidence            3446689999999999999999999999999999886  45899999999999999999999999999999998876543

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=3.6e-17  Score=109.85  Aligned_cols=76  Identities=24%  Similarity=0.362  Sum_probs=70.5

Q ss_pred             CceEEEcCCCC-CCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        113 DHRLIVENLSS-RVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       113 ~~~l~v~nl~~-~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      +.+|||+|||+ .+++++|.++|+.||.|..+.+....+|+|||+|++.++|.+|++.|+|..|.|+.|.|.+++..
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~~~   78 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ   78 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            45899999965 59999999999999999999999888899999999999999999999999999999999997644

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=9.4e-18  Score=107.89  Aligned_cols=77  Identities=16%  Similarity=0.277  Sum_probs=70.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRGGG  191 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~~~  191 (262)
                      ..+|||+|||..+++++|+++|++||.|..+.+....++||||+|.+.++|+.|+.  ++..++|+.|.|..+.++...
T Consensus         5 s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~~~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~a~~k~~~   81 (88)
T d1wf0a_           5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNAEPKHNS   81 (88)
T ss_dssp             CCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSCCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECCCCCCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeeccCceEEEEECCHHHHHHHHh--CCCEECCEEeEEEeCCCCCCC
Confidence            56999999999999999999999999999999988889999999999999999984  888999999999999776543

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1.7e-17  Score=105.89  Aligned_cols=73  Identities=19%  Similarity=0.340  Sum_probs=65.6

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCc--eEEEeec
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGR--RIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~--~~~v~~~  185 (262)
                      +.+|||+|||..+++++|+++|++||+|..+.+.     +.++|+|||+|.+.++|..|++.|||..+.|+  +|.|.++
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~A   85 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKFA   85 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEeC
Confidence            4589999999999999999999999999999886     34678999999999999999999999999984  5888764

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1.7e-19  Score=116.90  Aligned_cols=69  Identities=20%  Similarity=0.567  Sum_probs=61.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe-------------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEE
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL-------------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVE   70 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i-------------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~   70 (262)
                      .+|||+|||+.+|+++|+++|+.||.|..+.+             .+|||||+|.++++|+.|+ .|||..|.|+.|.|.
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~-~l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIR   80 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGG-GGSSCCSSSSCCCCB
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHH-hhCCcEECCEEEEEC
Confidence            58999999999999999999999998765544             3799999999999999999 699999999999997


Q ss_pred             Ecc
Q psy10320         71 IAK   73 (262)
Q Consensus        71 ~~~   73 (262)
                      .++
T Consensus        81 r~k   83 (90)
T d1u2fa_          81 RPH   83 (90)
T ss_dssp             CTT
T ss_pred             CCC
Confidence            444

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=7.3e-17  Score=107.23  Aligned_cols=79  Identities=23%  Similarity=0.343  Sum_probs=66.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc------cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        110 TRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH------KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~------~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      ..+.++|||+|||..+++++|+++|+.|| +..+.+.      +.++|+|||+|.+.++|++|+ .||+..|.|+.|.|.
T Consensus        12 ~~p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~gr~l~V~   89 (104)
T d1wi8a_          12 KSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVD   89 (104)
T ss_dssp             SSSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHH-HcCCCEECCEEEEEE
Confidence            33467999999999999999999999999 5555443      346789999999999998776 599999999999999


Q ss_pred             ecCCCCC
Q psy10320        184 EDKPRGG  190 (262)
Q Consensus       184 ~~~~~~~  190 (262)
                      ++.++..
T Consensus        90 ~a~~~~~   96 (104)
T d1wi8a_          90 VADQAQD   96 (104)
T ss_dssp             ECCCCCC
T ss_pred             ECCCCCC
Confidence            9877644

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=2.3e-18  Score=115.95  Aligned_cols=72  Identities=26%  Similarity=0.403  Sum_probs=63.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEe--------eCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVIL--------KNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|.++|+.||.|..+.+        .+|+|||+|.+.++|++|+ .|||..|+|+.|.|.++..
T Consensus        18 ~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al-~~~~~~i~gR~i~V~~~~~   96 (112)
T d1wela1          18 GFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAAL-CRHKQYMGNRFIQVHPITK   96 (112)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHH-TSCSBCSTTSCBEEEEECH
T ss_pred             CeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHH-HcCCCcCCCEEEEEEEcCh
Confidence            468999999999999999999999998765322        3789999999999999999 6999999999999988764


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      .
T Consensus        97 ~   97 (112)
T d1wela1          97 K   97 (112)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.71  E-value=5.3e-18  Score=109.62  Aligned_cols=76  Identities=29%  Similarity=0.371  Sum_probs=68.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ...+|||+|||..+++++|+++|+.||.|..+.+.    +.++|+|||+|.+.++|.+||+ |+|..+.|+.|.|..++.
T Consensus        12 ~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V~~ak~   90 (91)
T d1fjeb1          12 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPKG   90 (91)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEECCCC
T ss_pred             CCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEEEecCC
Confidence            35689999999999999999999999987766554    6678999999999999999996 999999999999999875


Q ss_pred             C
Q psy10320        188 R  188 (262)
Q Consensus       188 ~  188 (262)
                      +
T Consensus        91 k   91 (91)
T d1fjeb1          91 R   91 (91)
T ss_dssp             S
T ss_pred             C
Confidence            3

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.71  E-value=3.4e-17  Score=104.63  Aligned_cols=76  Identities=22%  Similarity=0.348  Sum_probs=70.4

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      .++|||+|||..+++++|.++|++||.|..+.+.. .+++|||+|.+.++|..|+..|||..+.|+.|.|.++.+..
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~-~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~~~~   83 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK-DKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACHSA   83 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEET-TTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSCCS
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeec-ccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCcC
Confidence            45899999999999999999999999999998875 47999999999999999999999999999999999987653

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=3.1e-17  Score=102.07  Aligned_cols=70  Identities=30%  Similarity=0.465  Sum_probs=64.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .|||+|||+.+++++|.++|++||+|..+.+.     +.++|+|||+|.+.++|.+|++ +++..+.|+.|.|..|
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEECCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEECCCEEEeeEC
Confidence            48999999999999999999999999999876     4568999999999999999997 7999999999998653

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.71  E-value=2e-17  Score=105.83  Aligned_cols=75  Identities=16%  Similarity=0.267  Sum_probs=66.7

Q ss_pred             CceEEEcCCCCCCC-HHHHHHHhhcCCceEEEecc------cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        113 DHRLIVENLSSRVS-WQDLKDFMRQVGEVCYADAH------KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~-~~~l~~~f~~~g~i~~~~~~------~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ..+|||+|||.+++ +++|+++|++||.|..+.+.      +.++|+|||+|.+.++|..|++ |||..++|+.|.|..+
T Consensus         4 ~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~l~V~~a   82 (86)
T d2ghpa3           4 GREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ-MNRSLLGNREISVSLA   82 (86)
T ss_dssp             TTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGG-GTTEEETTEEEEEEEC
T ss_pred             CCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHh-cCCCEECCEEEEEEEc
Confidence            46999999999986 55699999999999999875      3467899999999999999995 9999999999999998


Q ss_pred             CCC
Q psy10320        186 KPR  188 (262)
Q Consensus       186 ~~~  188 (262)
                      .++
T Consensus        83 ~~k   85 (86)
T d2ghpa3          83 DKK   85 (86)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            765

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.70  E-value=4.2e-17  Score=104.20  Aligned_cols=73  Identities=19%  Similarity=0.332  Sum_probs=66.1

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCC--ceEEEeec
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNG--RRIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g--~~~~v~~~  185 (262)
                      ..+|||+|||..+++++|+++|++||.|..+.+.     +.++|+|||+|.+.++|..|++.|||..+.|  ++|.|.+|
T Consensus         6 ~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~A   85 (85)
T d1b7fa2           6 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRLA   85 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEEC
Confidence            4579999999999999999999999999999876     4567899999999999999999999999976  77998765

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=1.1e-16  Score=105.87  Aligned_cols=75  Identities=15%  Similarity=0.219  Sum_probs=67.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|.++|++||.|..+.+.     +.++|+|||+|++.++|..|++.+++ .+.|+.|.|..+..
T Consensus        10 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~a~~   88 (103)
T d2cqda1          10 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAYL   88 (103)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEESTT
T ss_pred             CcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEEcCC
Confidence            3579999999999999999999999999999886     45689999999999999999998876 79999999998865


Q ss_pred             C
Q psy10320        188 R  188 (262)
Q Consensus       188 ~  188 (262)
                      .
T Consensus        89 ~   89 (103)
T d2cqda1          89 G   89 (103)
T ss_dssp             T
T ss_pred             C
Confidence            4

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=8.8e-18  Score=104.94  Aligned_cols=71  Identities=25%  Similarity=0.364  Sum_probs=65.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      |.|||+|||.++++++|+++|++||.|..+.+.     +.++|+|||+|.+.++|.+|++ +++..++|+.|.|..|
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEEC
Confidence            579999999999999999999999999888775     5578999999999999999997 7999999999999875

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=1.1e-17  Score=110.92  Aligned_cols=78  Identities=22%  Similarity=0.273  Sum_probs=70.6

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      +.++|||+|||..+++++|.++|.+||.|..+.+.     +.++++|||+|.+.++|..|+..|||..+.|+.|.|.+++
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak   96 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK   96 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCC
Confidence            46799999999999999999999999987666554     5678999999999999999999999999999999999998


Q ss_pred             CCC
Q psy10320        187 PRG  189 (262)
Q Consensus       187 ~~~  189 (262)
                      ++.
T Consensus        97 ~k~   99 (102)
T d2cpxa1          97 NKK   99 (102)
T ss_dssp             CCS
T ss_pred             Ccc
Confidence            754

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=1.4e-16  Score=104.79  Aligned_cols=77  Identities=18%  Similarity=0.337  Sum_probs=69.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhC------CcccCCceEE
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLD------NAELNGRRIR  181 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~------g~~~~g~~~~  181 (262)
                      .++|||+|||..+++++|+++|.+||.|..+.+.     +.++|+|||+|.+.++|..|++.|+      |..+.|+.|.
T Consensus         8 ~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l~   87 (98)
T d1x4ha1           8 GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLK   87 (98)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEEE
Confidence            5689999999999999999999999999988776     3468999999999999999999886      6678999999


Q ss_pred             EeecCCCC
Q psy10320        182 LIEDKPRG  189 (262)
Q Consensus       182 v~~~~~~~  189 (262)
                      |.++.++.
T Consensus        88 v~~a~~k~   95 (98)
T d1x4ha1          88 VDLAVTRD   95 (98)
T ss_dssp             EECCCCCC
T ss_pred             EEECCCCC
Confidence            99987754

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=3.5e-17  Score=108.00  Aligned_cols=76  Identities=22%  Similarity=0.355  Sum_probs=69.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .+|||+|||+.+++++|+++|.+||.|..+.+.     +.++|||||+|.+.++|..|++ ++|..|.|+.|.|..+.++
T Consensus        21 ~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i~V~~a~~k   99 (103)
T d1x4ba1          21 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVVEPKRAVAR   99 (103)
T ss_dssp             TEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEETTEEEEEECCSSC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEECccc
Confidence            589999999999999999999999999999875     4578999999999999999995 7999999999999998876


Q ss_pred             CC
Q psy10320        189 GG  190 (262)
Q Consensus       189 ~~  190 (262)
                      ..
T Consensus       100 e~  101 (103)
T d1x4ba1         100 EE  101 (103)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=2.8e-17  Score=108.13  Aligned_cols=74  Identities=24%  Similarity=0.341  Sum_probs=67.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||..+++++|+++|+.||.|..+.+.     +.++|||||+|.+.++|.+|+. |||..|.|+.|.|..+.+
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~-l~g~~~~G~~l~V~~a~~   96 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIVQASQA   96 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEETTEEEEEEEHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-HCCCEECCEEEEEEECCC
Confidence            3589999999999999999999999999999886     4578999999999999999995 999999999999987643

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=4.9e-17  Score=104.64  Aligned_cols=75  Identities=23%  Similarity=0.328  Sum_probs=67.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ..+|||+|||+.+++++|+++|+.||.|..+.+.     +.++|||||+|.+.++|.+||+.  +..++|+.|.|..+.+
T Consensus         8 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~--~~~l~Gr~i~v~~a~~   85 (90)
T d2cqga1           8 TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ--RHMIDGRWCDCKLPNS   85 (90)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS--CEEETTEEEEEECCCT
T ss_pred             CCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhc--CCccCCEEeEEEeCCC
Confidence            5689999999999999999999999999999876     45688999999999999999984  4589999999999877


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      +.
T Consensus        86 k~   87 (90)
T d2cqga1          86 KQ   87 (90)
T ss_dssp             TC
T ss_pred             CC
Confidence            54

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=4.5e-17  Score=109.76  Aligned_cols=75  Identities=13%  Similarity=0.156  Sum_probs=69.3

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .++|||+|||..+++++|.++|+.||.|..+.+. ..+++|||+|.+.++|..|++.|||..|.|+.|.|.++...
T Consensus        10 ~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~-~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~~   84 (111)
T d1whxa_          10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLP-EGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIG   84 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECC-SSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETT
T ss_pred             CCEEEEECCCCCCCHHHHHhhhhccCCccEEEee-ccCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCCC
Confidence            4589999999999999999999999999999885 45799999999999999999999999999999999887543

>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=99.70  E-value=1.5e-17  Score=104.92  Aligned_cols=76  Identities=17%  Similarity=0.229  Sum_probs=67.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCc-ccCCceEEEeecCCCCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNA-ELNGRRIRLIEDKPRGG  190 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~-~~~g~~~~v~~~~~~~~  190 (262)
                      ++|||+|||.++++++|.++|++||.|..+.+.. .+|+|||+|.+.++|..|++.|||. .++|+.|.|.++.++..
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~-~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~k~~   78 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL-KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSKKL   78 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE-ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCCCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEec-ccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCCcCc
Confidence            3799999999999999999999999886655443 5799999999999999999999996 69999999999987643

>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=99.69  E-value=8.6e-17  Score=103.19  Aligned_cols=74  Identities=15%  Similarity=0.395  Sum_probs=65.3

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCC-ceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVG-EVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPRG  189 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g-~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~~  189 (262)
                      ..+|||+|||.++++++|+++|++|| .+..+   ...+++|||+|.+.++|++|+..|||..+.|+.|.|.+++...
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G~~~~~~---~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~~~~   79 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYDLKYCYV---DRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTDA   79 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSCCCCEEE---EGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCCC
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcCceeeee---eccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCCCC
Confidence            45899999999999999999999999 34333   3367999999999999999999999999999999999986543

>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=99.69  E-value=5.9e-17  Score=104.85  Aligned_cols=77  Identities=18%  Similarity=0.344  Sum_probs=69.2

Q ss_pred             CceEEEcCCCCCCCHHHHHH----HhhcCCceEEEecc--cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKD----FMRQVGEVCYADAH--KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~----~f~~~g~i~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      +++|||+|||..+++++|++    +|++||+|..+.+.  +..+|+|||+|.+.++|..|+..|||..++|+.|.|.+++
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~ak   82 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK   82 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeeeccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeC
Confidence            57999999999999998864    68999999999886  3468999999999999999999999999999999999987


Q ss_pred             CCC
Q psy10320        187 PRG  189 (262)
Q Consensus       187 ~~~  189 (262)
                      +..
T Consensus        83 ~~~   85 (91)
T d1nu4a_          83 TDS   85 (91)
T ss_dssp             SCC
T ss_pred             CCc
Confidence            653

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=5.6e-17  Score=107.32  Aligned_cols=78  Identities=21%  Similarity=0.428  Sum_probs=68.2

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEec--------c-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCce
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADA--------H-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRR  179 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~--------~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~  179 (262)
                      ..+|||+|||..+++++|.++|+.||.|..+.+        .     +..+++|||+|.+.++|..|++.|||..|+|+.
T Consensus         8 ~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~   87 (101)
T d2cpea1           8 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGSK   87 (101)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECCEE
Confidence            569999999999999999999999998753322        1     355789999999999999999999999999999


Q ss_pred             EEEeecCCCCC
Q psy10320        180 IRLIEDKPRGG  190 (262)
Q Consensus       180 ~~v~~~~~~~~  190 (262)
                      |.|..++++..
T Consensus        88 i~V~~a~~~~p   98 (101)
T d2cpea1          88 LKVSLARKKPP   98 (101)
T ss_dssp             CEEECSSCCCC
T ss_pred             EEEEEcCCCCC
Confidence            99999987543

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=6.1e-17  Score=102.97  Aligned_cols=73  Identities=19%  Similarity=0.299  Sum_probs=66.7

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..+|||+|||..+++++|.++|+.||.|..+.+.     +.++|+|||+|.+.++|.+|++ +++..+.|+.|.|..|.
T Consensus         6 ~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~Gr~i~V~~A~   83 (84)
T d1l3ka1           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRAV   83 (84)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEECC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEeee
Confidence            3589999999999999999999999999998875     5568999999999999999997 69999999999998764

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=1.7e-16  Score=103.81  Aligned_cols=76  Identities=25%  Similarity=0.281  Sum_probs=69.1

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCC--ceEEEeecCCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNG--RRIRLIEDKPRG  189 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g--~~~~v~~~~~~~  189 (262)
                      ..+|||+|||.++++++|+++|++||.|..+.+.. .+++|||+|++.++|..|++.|||..+.|  +.|.|.++++..
T Consensus        17 s~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~-~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak~~~   94 (97)
T d1whya_          17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK-GDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSGP   94 (97)
T ss_dssp             CSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECS-SSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECCCCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeec-cccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCCCCC
Confidence            57999999999999999999999999999998875 46899999999999999999999999987  479999987643

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=5.7e-17  Score=101.95  Aligned_cols=73  Identities=14%  Similarity=0.219  Sum_probs=67.3

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .++|||+|++  +++++|+++|++||.|..+.+.. .+++|||+|.+.++|..|+..|||..++|+.|+|.+++++
T Consensus         5 ~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~-~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~~~   77 (79)
T d2bz2a1           5 GNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDP-PRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARKQ   77 (79)
T ss_dssp             CCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEET-TTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECCSS
T ss_pred             CCEEEEECCC--CCHHHHHHHHhccCccceeeecc-CCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEecCC
Confidence            5699999986  89999999999999999988864 5789999999999999999999999999999999999764

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=4.5e-17  Score=107.47  Aligned_cols=75  Identities=16%  Similarity=0.258  Sum_probs=67.0

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      .++|||+|||.++++++|.++|++||.|..+.+.    +..+|+|||+|.+.++|.+|++.|||..+.|+.+.|..+.|
T Consensus        18 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~~P   96 (101)
T d1x5oa1          18 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEP   96 (101)
T ss_dssp             TTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCCCC
Confidence            4689999999999999999999999999887766    34578999999999999999999999999999988766554

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=3.1e-17  Score=109.06  Aligned_cols=75  Identities=21%  Similarity=0.375  Sum_probs=68.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      .+|||+|||..+++++|.++|++||.|..+.+.     +.++|+|||+|.+.++|..|+..|+|..+.|+.|.|..+.+.
T Consensus         9 rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~~~   88 (104)
T d1p1ta_           9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAASE   88 (104)
T ss_dssp             SCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETTCT
T ss_pred             CEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCC
Confidence            479999999999999999999999999998875     345789999999999999999999999999999999998654

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.68  E-value=5e-17  Score=101.40  Aligned_cols=70  Identities=29%  Similarity=0.425  Sum_probs=64.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .|||+|||..+++++|+++|++||.|..+.+.     +.++++|||+|.+.++|.+|++ ++|..++|+.|.|..|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHh-cCCCEECCeEEEEEEC
Confidence            48999999999999999999999999888775     4568899999999999999996 9999999999999764

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=9.4e-17  Score=101.15  Aligned_cols=72  Identities=15%  Similarity=0.299  Sum_probs=65.0

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ...|||+|||.++++++|+++|++||.|..+.+.     +.++|+|||+|.+.+++.+|+. ++|..|+|+.|.|..|
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEETTEECEEEEC
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEEC
Confidence            3589999999999999999999999999988776     3467899999999999999985 8999999999999865

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.67  E-value=1.2e-16  Score=99.26  Aligned_cols=70  Identities=14%  Similarity=0.220  Sum_probs=64.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc---cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH---KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~---~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      +|||+|||+.+++++|+++|..||.|..+.+.   ....++|||+|++.++|.+|+. +++..++|+.|.|...
T Consensus         2 tv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~-~~~~~i~g~~i~V~~~   74 (75)
T d2ghpa2           2 TVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHHH-hcCcEECCEEEEEEEC
Confidence            79999999999999999999999999999886   3446799999999999999995 8999999999999764

>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=99.67  E-value=2.5e-16  Score=97.72  Aligned_cols=71  Identities=13%  Similarity=0.304  Sum_probs=63.3

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCCC
Q psy10320        116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~~  188 (262)
                      |||+|||+++++++|+++|++|| +..+.+ ...+|+|||+|.+.++|.+|+..|||..+.|+.|.|..+...
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~-~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~d   71 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFV-DKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPTD   71 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEE-ETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCST
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceee-cccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCCC
Confidence            79999999999999999999999 333333 457899999999999999999999999999999999998643

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=7.2e-17  Score=100.05  Aligned_cols=70  Identities=14%  Similarity=0.277  Sum_probs=63.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .|||+|||.++++++|+++|++||.|..+.+.     +.++|||||+|.+.++|.+||+ +++..++|+.|.|..|
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~-~~~~~i~g~~i~vk~A   75 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTT-CSSCCBTTBCCEEECC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHh-hCCCEECCEEeEEEEC
Confidence            48999999999999999999999999999876     4578999999999999999996 5778999999988754

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=7.5e-17  Score=101.13  Aligned_cols=73  Identities=16%  Similarity=0.199  Sum_probs=63.4

Q ss_pred             CccceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCcccCCce-EEEEEccCC
Q psy10320          1 MVGTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSLLGER-VTVEIAKGI   75 (262)
Q Consensus         1 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~~g~~-l~v~~~~~~   75 (262)
                      |..+.|+|+|||++++++.| +.|+.||+|.++.+.  ++||||+|.++++|++|| .+||..|+|+. |.|.++.++
T Consensus         2 ~~~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~~~~~~~fV~f~~~~~A~~Al-~~nG~~~~g~~~vgV~~~~~k   77 (81)
T d1wwha1           2 LDDTWVTVFGFPQASASYIL-LQFAQYGNILKHVMSNTGNWMHIRYQSKLQARKAL-SKDGRIFGESIMIGVKPCIDK   77 (81)
T ss_dssp             GGGGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEECSSSSEEEEEESSHHHHHHHH-TTTTCEETTTEECEEEECCCH
T ss_pred             CcccEEEEECCChHHHHHHH-HHHHhhhhhheEEecCCCCEEEEEEcccHHHHHHH-hcCCCeECCcEEEEEEeCCCh
Confidence            45689999999999986555 689999999999984  799999999999999999 69999999985 568887653

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=8.6e-16  Score=101.83  Aligned_cols=77  Identities=19%  Similarity=0.230  Sum_probs=67.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEE-ecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYA-DAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~-~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ...+|||+|||+++++++|+++|..+|.+... .+.    +.++|+|||+|++.++|++|++ +|+..|+|+.|.|..+.
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~~~~~i~gR~i~V~~~~   92 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-KHKERIGHRYIEIFKSS   92 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHT-TTTCCSSSSCCEEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-hCCCEEcceEEEEEECC
Confidence            35589999999999999999999999988764 333    4568999999999999999995 89999999999999887


Q ss_pred             CCC
Q psy10320        187 PRG  189 (262)
Q Consensus       187 ~~~  189 (262)
                      +..
T Consensus        93 ~~~   95 (104)
T d1wg5a_          93 RAE   95 (104)
T ss_dssp             TTT
T ss_pred             HHH
Confidence            653

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=9.2e-17  Score=105.57  Aligned_cols=60  Identities=18%  Similarity=0.400  Sum_probs=55.4

Q ss_pred             cceEEEcC--CCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCChhhHHHHHHHhcCccc
Q psy10320          3 GTKVYIGG--LPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDYRDADDAVYELNGKSL   62 (262)
Q Consensus         3 ~~~l~V~n--l~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~~~a~~a~~~l~~~~~   62 (262)
                      ..+|+|.|  ||+.+|+++|+++|++||.|..|.+.  ++||||+|.+.++|..|+..|||..+
T Consensus        18 t~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~k~~aFV~f~~~e~A~~A~~~lng~~i   81 (101)
T d2cq2a1          18 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEV   81 (101)
T ss_dssp             CSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTCSCEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccCccEEEEEECCHHHHHHHHHHhCCCCC
Confidence            46788855  99999999999999999999999984  78999999999999999999999876

>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=99.66  E-value=7.8e-17  Score=103.64  Aligned_cols=71  Identities=17%  Similarity=0.325  Sum_probs=63.7

Q ss_pred             CceEEEcCCCCCCCHHHH---HHHhhcCCceEEEeccc--------CCCceEEEEecCHHHHHHHHHHhCCcccCCceEE
Q psy10320        113 DHRLIVENLSSRVSWQDL---KDFMRQVGEVCYADAHK--------RHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR  181 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l---~~~f~~~g~i~~~~~~~--------~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~  181 (262)
                      .++|||+|||+.+++++|   .++|.+||.|..+.+..        ...++|||+|.+.++|..|++.|||..++|+.|+
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lk   87 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLK   87 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEEE
Confidence            458999999999999999   77899999999998862        2347999999999999999999999999999998


Q ss_pred             Ee
Q psy10320        182 LI  183 (262)
Q Consensus       182 v~  183 (262)
                      +.
T Consensus        88 vS   89 (89)
T d2cpia1          88 AS   89 (89)
T ss_dssp             EE
T ss_pred             EC
Confidence            73

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=3.9e-16  Score=103.07  Aligned_cols=76  Identities=22%  Similarity=0.355  Sum_probs=65.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ...+|||.|||+++++++|+++|..+|.+. +.+.    +..+|+|||+|.+.++|++|++ ||+..|+|+.|.|..+.+
T Consensus        14 ~~~~v~v~nLp~~~te~dl~~~F~~~~~~~-v~~~~~~~g~~~G~afVeF~~~~~a~~Al~-~~~~~i~gR~I~V~~s~~   91 (102)
T d1weza_          14 TGHCVHMRGLPYRATENDIYNFFSPLNPMR-VHIEIGPDGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLNST   91 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCSCCCSE-EEEEESSSSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEECC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHhccCcce-eeeEEecCCcceEEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEcCC
Confidence            356999999999999999999999998653 3332    5568899999999999999986 899999999999998876


Q ss_pred             CC
Q psy10320        188 RG  189 (262)
Q Consensus       188 ~~  189 (262)
                      ..
T Consensus        92 ~~   93 (102)
T d1weza_          92 AG   93 (102)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=2.4e-16  Score=105.30  Aligned_cols=78  Identities=21%  Similarity=0.242  Sum_probs=68.9

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-cCCCceEEEEecCHHHHHHHHHHhCCccc--CCceEEEeecCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-KRHRNEGVVEFESSSDMKKALDKLDNAEL--NGRRIRLIEDKPR  188 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~l~g~~~--~g~~~~v~~~~~~  188 (262)
                      +...|||+|||+.+++++|.++|++||.|..+.+. ...+|+|||+|.+.++|..|+..|||..+  .+..|.|.++++.
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~~~   85 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT   85 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEETTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECSSC
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeCCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecCCc
Confidence            35689999999999999999999999999998877 34578999999999999999999999998  4678888887664


Q ss_pred             C
Q psy10320        189 G  189 (262)
Q Consensus       189 ~  189 (262)
                      .
T Consensus        86 ~   86 (108)
T d2adba1          86 S   86 (108)
T ss_dssp             S
T ss_pred             c
Confidence            3

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=1.5e-16  Score=106.94  Aligned_cols=70  Identities=17%  Similarity=0.147  Sum_probs=62.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--CcEEEEEeCCh-hhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--NGFGFVEFEDY-RDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--~g~afV~f~~~-~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .+||||||+.+|+++|+++|+.||+|..|.|.  +|||||.|.++ ++|..|+..|++..+.++.+.|.+...
T Consensus        13 ~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~~~   85 (113)
T d1owxa_          13 LKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVL   85 (113)
T ss_dssp             EEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEEC
T ss_pred             EEEECCCCCCCCHHHHHHHHHhcCChheEEEecCCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEeec
Confidence            45999999999999999999999999999996  78999999996 689999999999988877777766653

>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=99.64  E-value=6.8e-18  Score=111.63  Aligned_cols=69  Identities=22%  Similarity=0.337  Sum_probs=64.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee-------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320          4 TKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK-------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus         4 ~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~-------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      +.++|.+++..++|++|.++|++||+|..|.|.       +|+|||+|.+.++|.+|++.|||..|+|+.|.|+++
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            457788888889999999999999999999983       699999999999999999999999999999999986

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=7.7e-17  Score=99.60  Aligned_cols=66  Identities=23%  Similarity=0.383  Sum_probs=60.9

Q ss_pred             EEEcCCCCCCCHHHHHHHhhcCCceEEEecc-----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEE
Q psy10320        116 LIVENLSSRVSWQDLKDFMRQVGEVCYADAH-----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIR  181 (262)
Q Consensus       116 l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~  181 (262)
                      |||+|||.++++++|.++|.+||.|..+.+.     +..+|+|||+|.+.++|..|+..|||..+.|+.++
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            7999999999999999999999999988765     45689999999999999999999999999998763

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=6.5e-16  Score=100.92  Aligned_cols=78  Identities=22%  Similarity=0.230  Sum_probs=67.9

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCc-eEEEecc------cCCCceEEEEecCHHHHHHHHHHhCCc--ccCCceEEEe
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGE-VCYADAH------KRHRNEGVVEFESSSDMKKALDKLDNA--ELNGRRIRLI  183 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~-i~~~~~~------~~~~~~~~v~f~~~~~a~~a~~~l~g~--~~~g~~~~v~  183 (262)
                      +|.|||+|||..+++++|.++|++||+ |..+.+.      +.++|+|||+|.+.++|..|+..|++.  .++|+.|.|.
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~   80 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVD   80 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEE
Confidence            368999999999999999999999996 8888875      346789999999999999999999754  5579999999


Q ss_pred             ecCCCCC
Q psy10320        184 EDKPRGG  190 (262)
Q Consensus       184 ~~~~~~~  190 (262)
                      ++.|...
T Consensus        81 ~A~p~~~   87 (96)
T d2disa1          81 WAEPEID   87 (96)
T ss_dssp             ESCSSCS
T ss_pred             EcCCCCC
Confidence            9987543

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=1.5e-15  Score=97.45  Aligned_cols=76  Identities=13%  Similarity=0.163  Sum_probs=68.3

Q ss_pred             CCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHh--CCcccCCceEEEeecCCC
Q psy10320        112 SDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL--DNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       112 ~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l--~g~~~~g~~~~v~~~~~~  188 (262)
                      +..+|||+|||..+++++|.++|++||.|..+.+.. .+++|||+|.+.++|..|+..+  ++..+.|+.|.|.+++.+
T Consensus         7 Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~-~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~sk~~   84 (88)
T d2cq1a1           7 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLK-GKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSNHK   84 (88)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEET-TTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECSCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcccccccccccc-cceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEECCCC
Confidence            467999999999999999999999999999998764 4689999999999999999865  577899999999998654

>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=99.63  E-value=2.6e-16  Score=100.74  Aligned_cols=73  Identities=21%  Similarity=0.289  Sum_probs=63.9

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEE-Eecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCY-ADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~-~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ...|||+|||+.+++++|.++|..||.+.. +.+.    +.++|+|||+|.+.++|..|+..||+..+.|+.|+|..+
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l~   86 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   86 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            457999999999999999999999998643 2222    556899999999999999999999999999999999764

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=6.9e-16  Score=98.21  Aligned_cols=72  Identities=14%  Similarity=0.304  Sum_probs=65.4

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ..+|||+|||..+++++|.++|+.||.|..+.+.    +..+|+|||+|.+.++|.+||+ ++|..+.|+.|.|...
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~-~~~~~~~g~~l~v~~~   81 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFK   81 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHT-CCCCEETTEECEEEEG
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHH-HCCCEECCEEEEEEEc
Confidence            3589999999999999999999999999999886    3457899999999999999995 7999999999999764

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.63  E-value=7e-15  Score=97.29  Aligned_cols=78  Identities=18%  Similarity=0.278  Sum_probs=69.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHh--CCcccCCceEEEeecCCC
Q psy10320        111 RSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL--DNAELNGRRIRLIEDKPR  188 (262)
Q Consensus       111 ~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l--~g~~~~g~~~~v~~~~~~  188 (262)
                      .+..+|||+|||..+++++|.++|..||.|..+.+.. .+++|||+|++.++|..|+..|  ++..++|+.|.|.++...
T Consensus        13 ~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~-~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s~~~   91 (104)
T d1wexa_          13 SVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP-FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTSK   91 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET-TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEe-cceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEcCCC
Confidence            3467999999999999999999999999999998864 5789999999999999999987  556789999999998654


Q ss_pred             C
Q psy10320        189 G  189 (262)
Q Consensus       189 ~  189 (262)
                      .
T Consensus        92 ~   92 (104)
T d1wexa_          92 R   92 (104)
T ss_dssp             S
T ss_pred             c
Confidence            3

>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=99.62  E-value=5.9e-16  Score=113.79  Aligned_cols=72  Identities=26%  Similarity=0.490  Sum_probs=66.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee--------CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEccC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK--------NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAKG   74 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~~   74 (262)
                      .++|||+|||+.+|+++|+++|..||.|..+.+.        +|||||+|.+.++|++|+ .+++..|.|+.|.|.++.+
T Consensus        97 ~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al-~~~~~~~~G~~i~V~~A~~  175 (183)
T d1u1qa_          97 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIV-IQKYHTVNGHNCEVRKALS  175 (183)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHH-TSSCEEETTEEEEEEECCC
T ss_pred             cceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHHHH-HhCCCeECCEEEEEEecCC
Confidence            4799999999999999999999999999999873        689999999999999999 5799999999999999865


Q ss_pred             C
Q psy10320         75 I   75 (262)
Q Consensus        75 ~   75 (262)
                      +
T Consensus       176 k  176 (183)
T d1u1qa_         176 K  176 (183)
T ss_dssp             H
T ss_pred             c
Confidence            4

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.60  E-value=2.3e-15  Score=98.61  Aligned_cols=78  Identities=13%  Similarity=0.144  Sum_probs=68.6

Q ss_pred             CCCCceEEEcCCCCC-CCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHH--HhCCcccCCceEEEeecC
Q psy10320        110 TRSDHRLIVENLSSR-VSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALD--KLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       110 ~~~~~~l~v~nl~~~-~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~--~l~g~~~~g~~~~v~~~~  186 (262)
                      ...+.+|||+|||.+ +++++|.++|+.||.|..+.+.. .+++|||+|.+.++|..|++  .+++..++|+.|.|.+++
T Consensus        15 ~~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~-~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~   93 (99)
T d1x4fa1          15 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR-MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSE   93 (99)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET-TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEEC
T ss_pred             CCCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEee-cCCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcC
Confidence            344679999999985 89999999999999999998864 46999999999999999997  478889999999999886


Q ss_pred             CC
Q psy10320        187 PR  188 (262)
Q Consensus       187 ~~  188 (262)
                      ..
T Consensus        94 ~~   95 (99)
T d1x4fa1          94 KY   95 (99)
T ss_dssp             SC
T ss_pred             Cc
Confidence            54

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=8.1e-16  Score=103.29  Aligned_cols=77  Identities=21%  Similarity=0.283  Sum_probs=65.3

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHHHhhcCCceEEEe-----cccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        109 PTRSDHRLIVENLSSRVSWQDLKDFMRQVGEVCYAD-----AHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       109 ~~~~~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~-----~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      +....++|||+|||+.+++++|.++|+.+|.+..+.     ..+..+|+|||+|.+.++|++|+. |||..|+|+.|.|.
T Consensus        14 ~~~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~~~~~i~gR~i~V~   92 (112)
T d1wela1          14 PHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVH   92 (112)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEE
T ss_pred             CCCCCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHH-cCCCcCCCEEEEEE
Confidence            344567999999999999999999999999764321     226678999999999999999995 99999999999997


Q ss_pred             ecC
Q psy10320        184 EDK  186 (262)
Q Consensus       184 ~~~  186 (262)
                      .+.
T Consensus        93 ~~~   95 (112)
T d1wela1          93 PIT   95 (112)
T ss_dssp             EEC
T ss_pred             EcC
Confidence            654

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=2e-15  Score=99.93  Aligned_cols=73  Identities=16%  Similarity=0.209  Sum_probs=64.0

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEE-Eecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCY-ADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~-~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      ..+|||+|||+.+++++|.++|..||.+.. +.+.    +.++|+|||+|.+.++|..||+ |+|..|+|+.|.|..+.
T Consensus         8 ~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~~~~   85 (103)
T d2cpya1           8 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-LHRKKLNGREAFVHVVT   85 (103)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEEEEC
T ss_pred             ceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEEECC
Confidence            458999999999999999999999997754 3332    5679999999999999999996 99999999999997764

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.56  E-value=7.8e-15  Score=93.99  Aligned_cols=75  Identities=15%  Similarity=0.201  Sum_probs=67.1

Q ss_pred             CCceEEEcCCCCC-CCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHh--CCcccCCceEEEeecCC
Q psy10320        112 SDHRLIVENLSSR-VSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKL--DNAELNGRRIRLIEDKP  187 (262)
Q Consensus       112 ~~~~l~v~nl~~~-~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l--~g~~~~g~~~~v~~~~~  187 (262)
                      +..+|||+|||.. +++++|.++|+.||.|..+.+.. .+++|||+|++.++|..|+..|  ++..+.|++|.|.++..
T Consensus         7 ~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~-~k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~s~~   84 (89)
T d1x4da1           7 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILN-KINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQK   84 (89)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECS-SSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECC
T ss_pred             CCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeec-cceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECCC
Confidence            3669999999986 78999999999999999998875 3579999999999999999966  67789999999999864

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.56  E-value=3.6e-15  Score=97.52  Aligned_cols=73  Identities=27%  Similarity=0.451  Sum_probs=63.7

Q ss_pred             cceEEEcCC--CCCC---------CHHHHHHHHhcCCceeEEEee----CcEEEEEeCChhhHHHHHHHhcCcccCCceE
Q psy10320          3 GTKVYIGGL--PYGV---------RERDLEKFVKGYGRIRDVILK----NGFGFVEFEDYRDADDAVYELNGKSLLGERV   67 (262)
Q Consensus         3 ~~~l~V~nl--~~~~---------t~~~l~~~F~~~G~v~~v~i~----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l   67 (262)
                      ..+|+|.||  |..+         .+++|++.|++||.|..|.+.    +|+|||+|.++++|..|+..|||..|+|+.|
T Consensus         8 ~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~~~G~~fV~f~~~e~A~~A~~~lng~~~~gr~i   87 (99)
T d2dita1           8 ERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQI   87 (99)
T ss_dssp             CCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTCEEEEECSCHHHHHHHHHHSTTCEETTEEC
T ss_pred             ccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCCCccEEEEEECCHHHHHHHHHHhCCcEECCEEE
Confidence            458999999  5432         236889999999999999983    7899999999999999999999999999999


Q ss_pred             EEEEccCC
Q psy10320         68 TVEIAKGI   75 (262)
Q Consensus        68 ~v~~~~~~   75 (262)
                      .|.+...+
T Consensus        88 ~v~~~~g~   95 (99)
T d2dita1          88 TAQAWDGT   95 (99)
T ss_dssp             EEEECCSC
T ss_pred             EEEEeCCc
Confidence            99998654

>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=99.56  E-value=4.8e-15  Score=97.68  Aligned_cols=77  Identities=14%  Similarity=0.105  Sum_probs=68.2

Q ss_pred             CceEEEcCCCCCCCH-----HHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSW-----QDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~-----~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~~  187 (262)
                      ...|||+||+..+..     ++|+++|+.||.|..+.+.. .+++|||+|.+.++|..|+..|||..++|+.|.|.++++
T Consensus         5 ~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k-~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~a~~   83 (104)
T d1weya_           5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK-SFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQT   83 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET-TTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCCC
T ss_pred             CceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEec-CCCEEEEEECCHHHHHHHHHHhcccccCCCEeEEeeccc
Confidence            568999999988632     56999999999999998874 578999999999999999999999999999999999976


Q ss_pred             CCC
Q psy10320        188 RGG  190 (262)
Q Consensus       188 ~~~  190 (262)
                      ...
T Consensus        84 ~~~   86 (104)
T d1weya_          84 LHI   86 (104)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            544

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=1.5e-14  Score=95.52  Aligned_cols=73  Identities=19%  Similarity=0.292  Sum_probs=63.0

Q ss_pred             ccceEEEcCC--CCCC--------CHHHHHHHHhcCCceeEEEee----------CcEEEEEeCChhhHHHHHHHhcCcc
Q psy10320          2 VGTKVYIGGL--PYGV--------RERDLEKFVKGYGRIRDVILK----------NGFGFVEFEDYRDADDAVYELNGKS   61 (262)
Q Consensus         2 ~~~~l~V~nl--~~~~--------t~~~l~~~F~~~G~v~~v~i~----------~g~afV~f~~~~~a~~a~~~l~~~~   61 (262)
                      ++..|.|.||  |..+        ..+||++.|++||.|..|.|.          .|++||+|.++++|..|+..|||..
T Consensus         3 Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr~   82 (104)
T d1o0pa_           3 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRK   82 (104)
T ss_dssp             CCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSCC
T ss_pred             CCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCCE
Confidence            3567899999  4443        345789999999999999984          3899999999999999999999999


Q ss_pred             cCCceEEEEEccC
Q psy10320         62 LLGERVTVEIAKG   74 (262)
Q Consensus        62 ~~g~~l~v~~~~~   74 (262)
                      |+|+.|.|.+...
T Consensus        83 f~gR~v~v~f~~~   95 (104)
T d1o0pa_          83 FANRVVVTKYCDP   95 (104)
T ss_dssp             SSSSCCEEEEECH
T ss_pred             ECCeEEEEEEcCH
Confidence            9999999999863

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=1.1e-15  Score=98.55  Aligned_cols=71  Identities=18%  Similarity=0.324  Sum_probs=61.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----------cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEe
Q psy10320        114 HRLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----------KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLI  183 (262)
Q Consensus       114 ~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----------~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~  183 (262)
                      ..|||+|||..+++++|.++|+.||.+..+.+.          +..+++|||+|.+.++|..|+. |||..+.|+.|+|.
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIR   80 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSSSCCCCB
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECCEEEEEC
Confidence            379999999999999999999999976544332          4568999999999999999985 99999999999996


Q ss_pred             ec
Q psy10320        184 ED  185 (262)
Q Consensus       184 ~~  185 (262)
                      ..
T Consensus        81 r~   82 (90)
T d1u2fa_          81 RP   82 (90)
T ss_dssp             CT
T ss_pred             CC
Confidence            43

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=2.6e-13  Score=88.80  Aligned_cols=64  Identities=19%  Similarity=0.261  Sum_probs=57.4

Q ss_pred             CCCceEEEc--CCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCccc
Q psy10320        111 RSDHRLIVE--NLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAEL  175 (262)
Q Consensus       111 ~~~~~l~v~--nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~  175 (262)
                      .+..+|+|.  |||..+++++|+++|++||.|..+.+.. .+++|||+|.+.++|..|+..|||..+
T Consensus        16 ~pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~-~k~~aFV~f~~~e~A~~A~~~lng~~i   81 (101)
T d2cq2a1          16 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP-NKPYSFARYRTTEESKRAYVTLNGKEV   81 (101)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT-TCSCEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeecc-CccEEEEEECCHHHHHHHHHHhCCCCC
Confidence            335688885  5999999999999999999999998875 468999999999999999999999987

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=3.8e-13  Score=90.04  Aligned_cols=72  Identities=17%  Similarity=0.242  Sum_probs=62.5

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCH-HHHHHHHHHhCCcccCCceEEEeec
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESS-SDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~-~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      ...+||+|||..+++++|.++|++||+|..+.+.. .+++|||.|.+. ++|..|+..|++..+.+..+.|...
T Consensus        11 ~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~-~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~   83 (113)
T d1owxa_          11 CLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVR-GAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWE   83 (113)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCT-TCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEE
T ss_pred             CeEEEECCCCCCCCHHHHHHHHHhcCChheEEEec-CCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEe
Confidence            34669999999999999999999999999999985 479999999986 7899999999999888776665443

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=6.3e-13  Score=86.62  Aligned_cols=78  Identities=17%  Similarity=0.248  Sum_probs=66.3

Q ss_pred             CCCceEEEcCC--CCCCC---------HHHHHHHhhcCCceEEEecc-cCCCceEEEEecCHHHHHHHHHHhCCcccCCc
Q psy10320        111 RSDHRLIVENL--SSRVS---------WQDLKDFMRQVGEVCYADAH-KRHRNEGVVEFESSSDMKKALDKLDNAELNGR  178 (262)
Q Consensus       111 ~~~~~l~v~nl--~~~~~---------~~~l~~~f~~~g~i~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~  178 (262)
                      ....+|+|.||  |.++.         .++|.+.|++||.|..+.+. ...+|+|||+|++.++|..|+..|||.+++|+
T Consensus         6 ~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~~~G~~fV~f~~~e~A~~A~~~lng~~~~gr   85 (99)
T d2dita1           6 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGR   85 (99)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCTTCEEEEECSCHHHHHHHHHHSTTCEETTE
T ss_pred             CCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCCCccEEEEEECCHHHHHHHHHHhCCcEECCE
Confidence            34669999999  54432         36799999999999998876 45679999999999999999999999999999


Q ss_pred             eEEEeecCCC
Q psy10320        179 RIRLIEDKPR  188 (262)
Q Consensus       179 ~~~v~~~~~~  188 (262)
                      .|.|.+..++
T Consensus        86 ~i~v~~~~g~   95 (99)
T d2dita1          86 QITAQAWDGT   95 (99)
T ss_dssp             ECEEEECCSC
T ss_pred             EEEEEEeCCc
Confidence            9999987654

>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=99.39  E-value=2e-14  Score=94.64  Aligned_cols=71  Identities=18%  Similarity=0.178  Sum_probs=64.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc----cCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEeec
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH----KRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIED  185 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~  185 (262)
                      .++|.+++..+++++|.++|++||.|..+.+.    +..+|+|||+|.+.++|.+|+..|||.+++|+.|.|.+.
T Consensus        29 ~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          29 DVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             hHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            46777888889999999999999999999886    456799999999999999999999999999999999875

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.33  E-value=1.8e-12  Score=80.77  Aligned_cols=72  Identities=17%  Similarity=0.057  Sum_probs=60.8

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCc-eEEEeecCC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGR-RIRLIEDKP  187 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~-~~~v~~~~~  187 (262)
                      .+-|+|.|+|++++++.| ++|++||+|..+.+. ..+++|||+|++.++|++||. +||..++|+ .|.|..+..
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~-~~~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~vgV~~~~~   76 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYGNILKHVMS-NTGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKPCID   76 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEEC-SSSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEECCC
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhhhhheEEec-CCCCEEEEEEcccHHHHHHHh-cCCCeECCcEEEEEEeCCC
Confidence            347999999999986655 579999999999875 457999999999999999995 999999997 467876654

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.25  E-value=7.2e-12  Score=82.34  Aligned_cols=74  Identities=20%  Similarity=0.194  Sum_probs=62.8

Q ss_pred             CceEEEcCC--CCCCC--------HHHHHHHhhcCCceEEEeccc-------CCCceEEEEecCHHHHHHHHHHhCCccc
Q psy10320        113 DHRLIVENL--SSRVS--------WQDLKDFMRQVGEVCYADAHK-------RHRNEGVVEFESSSDMKKALDKLDNAEL  175 (262)
Q Consensus       113 ~~~l~v~nl--~~~~~--------~~~l~~~f~~~g~i~~~~~~~-------~~~~~~~v~f~~~~~a~~a~~~l~g~~~  175 (262)
                      +..|.|.|+  |.++.        .++|++.|++||.|..+.+..       ...|++||+|.+.++|.+|+..|||.++
T Consensus         4 s~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr~f   83 (104)
T d1o0pa_           4 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKF   83 (104)
T ss_dssp             CSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSCCS
T ss_pred             CcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCCEE
Confidence            568999999  44432        357999999999999998862       2357999999999999999999999999


Q ss_pred             CCceEEEeecC
Q psy10320        176 NGRRIRLIEDK  186 (262)
Q Consensus       176 ~g~~~~v~~~~  186 (262)
                      +|+.|.+.+..
T Consensus        84 ~gR~v~v~f~~   94 (104)
T d1o0pa_          84 ANRVVVTKYCD   94 (104)
T ss_dssp             SSSCCEEEEEC
T ss_pred             CCeEEEEEEcC
Confidence            99999998764

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.48  E-value=2.9e-07  Score=57.18  Aligned_cols=62  Identities=16%  Similarity=0.173  Sum_probs=54.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHhcCCceeEEEee----------CcEEEEEeCChhhHHHHHHHhcCcccCC
Q psy10320          3 GTKVYIGGLPYGVRERDLEKFVKGYGRIRDVILK----------NGFGFVEFEDYRDADDAVYELNGKSLLG   64 (262)
Q Consensus         3 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~----------~g~afV~f~~~~~a~~a~~~l~~~~~~g   64 (262)
                      +|+|.|..|||.+||+++.+.+...|++......          -.-|||.|.+.+++....+.++|..|.+
T Consensus         1 ~tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D   72 (91)
T d1uw4a_           1 LSKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CCEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             CceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEc
Confidence            5899999999999999999999999988766552          3579999999999999999999987743

>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=98.20  E-value=2.3e-06  Score=52.02  Aligned_cols=54  Identities=24%  Similarity=0.375  Sum_probs=49.9

Q ss_pred             HHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEc
Q psy10320         18 RDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIA   72 (262)
Q Consensus        18 ~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~   72 (262)
                      ++|.+.|..||+|.-|++..+..+|.|.+-+.|..|+ .++|..+.|+.|.|...
T Consensus        39 ~~Llq~l~~~GeViLvRFv~d~mwVTF~dG~SAL~al-~l~g~~v~G~~l~It~~   92 (95)
T d1ufwa_          39 TELMQTLGSYGTIVLVRINQGQMLVTFADSHSALSVL-DVDGMKVKGRAVKISGP   92 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEETTEEEEECSCSHHHHHHH-HGGGSEETTEEEEEECC
T ss_pred             HHHHHHHhhCCeEEEEEEeCCeEEEEECCcHHHHHHh-ccCCeEEcceEEEEecC
Confidence            4678889999999999999999999999999999999 99999999999999753

>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=97.90  E-value=3.9e-05  Score=44.12  Aligned_cols=61  Identities=23%  Similarity=0.367  Sum_probs=52.0

Q ss_pred             CCCCHHHHH----HHHhcCCceeEEEee-----CcEEEEEeCChhhHHHHHHHhcCcccCCceEEEEEcc
Q psy10320         13 YGVRERDLE----KFVKGYGRIRDVILK-----NGFGFVEFEDYRDADDAVYELNGKSLLGERVTVEIAK   73 (262)
Q Consensus        13 ~~~t~~~l~----~~F~~~G~v~~v~i~-----~g~afV~f~~~~~a~~a~~~l~~~~~~g~~l~v~~~~   73 (262)
                      +.+++.+|+    +.|.++|.|..+.+.     .-.|-|...+.++|..|+..|+...|++++|.|.++.
T Consensus         2 ~~L~~kelqq~L~~~f~~h~~V~sv~l~~~~dg~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1           2 YRLSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             TTSCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CcCCHHHHHHHHHHHHHhheeEEEEEEEeccCCcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            345556655    467899999999994     4589999999999999999999999999999999875

>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=97.47  E-value=0.00045  Score=39.62  Aligned_cols=59  Identities=19%  Similarity=0.253  Sum_probs=51.3

Q ss_pred             HHHHHHhhcCCceEEEecccCC--CceEEEEecCHHHHHHHHHHhCCcccCCceEEEeecC
Q psy10320        128 QDLKDFMRQVGEVCYADAHKRH--RNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIEDK  186 (262)
Q Consensus       128 ~~l~~~f~~~g~i~~~~~~~~~--~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~~~  186 (262)
                      +.|...|.+++.|..+.+....  .-.|-|...+..+|.-|+..||...+++++|.|.++.
T Consensus        11 q~L~~~f~~h~~V~sv~l~~~~dg~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1          11 QLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHhheeEEEEEEEeccCCcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            4567788999999999887433  4578999999999999999999999999999998864

>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=97.30  E-value=0.00053  Score=41.46  Aligned_cols=53  Identities=19%  Similarity=0.396  Sum_probs=46.4

Q ss_pred             HHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhCCcccCCceEEEee
Q psy10320        128 QDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLDNAELNGRRIRLIE  184 (262)
Q Consensus       128 ~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g~~~~v~~  184 (262)
                      .+|.+.|..||+|..+.+..   +...|.|.+-..|.+|+. ++|.+++|+.|.|.-
T Consensus        39 ~~Llq~l~~~GeViLvRFv~---d~mwVTF~dG~SAL~al~-l~g~~v~G~~l~It~   91 (95)
T d1ufwa_          39 TELMQTLGSYGTIVLVRINQ---GQMLVTFADSHSALSVLD-VDGMKVKGRAVKISG   91 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEET---TEEEEECSCSHHHHHHHH-GGGSEETTEEEEEEC
T ss_pred             HHHHHHHhhCCeEEEEEEeC---CeEEEEECCcHHHHHHhc-cCCeEEcceEEEEec
Confidence            45788889999999888864   568999999999999996 899999999999864

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.24  E-value=0.00067  Score=41.64  Aligned_cols=63  Identities=13%  Similarity=0.288  Sum_probs=53.1

Q ss_pred             eEEEcCCCCCCCHHHHHHHhhcCCceEEEecc-c------CCCceEEEEecCHHHHHHHHHHhCCcccCC
Q psy10320        115 RLIVENLSSRVSWQDLKDFMRQVGEVCYADAH-K------RHRNEGVVEFESSSDMKKALDKLDNAELNG  177 (262)
Q Consensus       115 ~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~-~------~~~~~~~v~f~~~~~a~~a~~~l~g~~~~g  177 (262)
                      .|.|..||+.++++++.+.+...|.+.+.... +      ....-|||.|.+.++.....+..+|..+.+
T Consensus         3 KvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D   72 (91)
T d1uw4a_           3 KVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             EEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             eEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEc
Confidence            68899999999999999999998888776554 1      123468999999999999999999987754

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.21  E-value=0.00059  Score=42.02  Aligned_cols=54  Identities=19%  Similarity=0.244  Sum_probs=48.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHhcCCceeEEEeeCcEEEEEeCChhhHHHHHHHhc
Q psy10320          5 KVYIGGLPYGVRERDLEKFVKGYGRIRDVILKNGFGFVEFEDYRDADDAVYELN   58 (262)
Q Consensus         5 ~l~V~nl~~~~t~~~l~~~F~~~G~v~~v~i~~g~afV~f~~~~~a~~a~~~l~   58 (262)
                      -||.-..|......||.++|+.||.|.--.|...-|||...+.++|+.++..+.
T Consensus        17 HVf~~tFP~~Wk~~dI~~lFSpfG~V~VswIddTSa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          17 HVLHVTFPKEWKTSDLYQLFSAFGNIQISWIDDTSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             SEEEEECCTTCCHHHHHHHHTTTCSCCCEEEETTEEEEECSCHHHHHHHHHHHH
T ss_pred             eeEEEeCCcccchhHHHHHhcCCCceEEEEecCceEEEEecCHHHHHHHHHHhc
Confidence            477788999999999999999999998888888899999999999998885544

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.33  E-value=0.013  Score=35.83  Aligned_cols=56  Identities=9%  Similarity=0.164  Sum_probs=46.0

Q ss_pred             CceEEEcCCCCCCCHHHHHHHhhcCCceEEEecccCCCceEEEEecCHHHHHHHHHHhC
Q psy10320        113 DHRLIVENLSSRVSWQDLKDFMRQVGEVCYADAHKRHRNEGVVEFESSSDMKKALDKLD  171 (262)
Q Consensus       113 ~~~l~v~nl~~~~~~~~l~~~f~~~g~i~~~~~~~~~~~~~~v~f~~~~~a~~a~~~l~  171 (262)
                      ...||.-.+|..+...||.++|+.||.|.-..|.   -.-|||...+.++|..++..+.
T Consensus        15 RdHVf~~tFP~~Wk~~dI~~lFSpfG~V~VswId---dTSa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          15 RDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWID---DTSAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CCSEEEEECCTTCCHHHHHHHHTTTCSCCCEEEE---TTEEEEECSCHHHHHHHHHHHH
T ss_pred             cceeEEEeCCcccchhHHHHHhcCCCceEEEEec---CceEEEEecCHHHHHHHHHHhc
Confidence            3478888999999999999999999977555442   3479999999999999887543