Citrus Sinensis ID: 024507

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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
MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAGTKTREKFSVAVSNLTAKESPIAV
Secondary Structure (PSIPRED)
cccccEEEEEcccccccHHHHHHHHcccccEEEEEEEEcccccEEEEEEEccHHHHHHHHHHcccccccEEEEEEEccccccccccccHHHHHccccccccccccccccccccccccccccccEEEEccccccHHHHHHHHHHHHHHHHHcccHHHHHHHHcccccccccccEEccEEEcccccccccccccccHHHHHHHHHHHHHHHcccccEEcccEEHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEEEcccccccHHHHHHHHHccccEEEEEEEccccccEEEEEEEccHHHHHHHHHHcccEEcccEEEEEEcccccccccHccccccccccccccccccccccccccccHHHccHHHHHHHHHHHcccEEcHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccHHHHHcHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccEc
Coil and Loop (DISEMBL)
MQQTRTVQVKNVSDLAHEREIheffsfsgdIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIvsitpaenyvpkpesqeVTVVVNAVseapsgnnegktspsssgrmyVNRAQEVVTSVLARGSAIRQEAVNKAKafdekhqftaNASAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKindtgsavktsryVTAGTAWLNGAFSKVAragqvagtkTREKFSVAVSNltakespiav
Flexible Loop (DISEMBL)
mqqtrtvqvknvsdlahereiheffsfsgdiERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAvseapsgnnegktspsssgrmyVNRAQEVVTSVLARGSAIRQEAVNKAKafdekhqftanasakvisfdRRVGFTEKLtvgisvvnekvksvdqrlhvSDKTMAAIFAAerkindtgsavKTSRYVTAGTAWLNGAFSKVARAgqvagtktrekfsvavsnltakespiav
Low Complexity Region (SEG)
MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAGTKTREKFSVAVSNLTAKESPIAV
Disordered region (IsUnstruct)
**************LAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAENYV*********VV******************************EVVTSVLARGSAIR**AVN*AKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAG***********************
Disordered Region (DISOPRED)
**QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITP*************************************************TSVLARGSAIRQEAVNKAKAFDEKHQFTANA**********************VVN*********************************VK*SRYVTAGTAWLNGAFSKV*******************************
Disordered Region (DISEMBL)
***********VSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEA***************RMYVNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAGTKTREKFSVAVSNLTAKESPIAV
Disordered Region (DISPRO)
*QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAENYV*********************************RMYVNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAGTKTREKFSVAVS***********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAGTKTREKFSVAVSNLTAKESPIAV
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	266	2.2.26 [Sep-21-2011]
P87216	257	Protein vip1 OS=Schizosac	yes	no	0.736	0.762	0.243	2e-05

>sp|P87216|VIPI_SCHPO Protein vip1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=vip1 PE=1 SV=1

 Score = 49.7 bits (117), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 57/234 (24%), Positives = 94/234 (40%), Gaps = 38/234 (16%)

Query: 7   VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGAT 66
           V V N+S    E++I +FFSF G +  I   +  G+++TA + F+   A + ALLL  A 
Sbjct: 5   VIVTNISPEVTEKQISDFFSFCGKVSNISTEKS-GETQTAKIQFERPSATKTALLLQDAL 63

Query: 67  IVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQEVVT 126
           +    + IT  +                    A S  ++G      + R        +++
Sbjct: 64  LGQNKIQITSEDGG------------------AASTTDQGGAGGDQAARQEDKPRSAIIS 105

Query: 127 SVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKS 186
            +L+RG  +    + K+                 I  D+  G + K    +      V+S
Sbjct: 106 ELLSRGYHLSDVTLEKS-----------------IQLDQSYGVSSKFKGILESALSGVRS 148

Query: 187 VDQRLHVSDKT--MAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARA 238
           V++R HV++K   +   FA   K+N T S V T  +    TA    A  KV  A
Sbjct: 149 VNERYHVTEKANEVDNKFAISDKLNRTSSLVSTYFHKALETAAGTSAGQKVQNA 202

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

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	266
224146020	274	predicted protein [Populus trichocarpa]	0.992	0.963	0.820	1e-119
224123716	269	predicted protein [Populus trichocarpa]	0.992	0.981	0.817	1e-118
255569508	249	nucleic acid binding protein, putative [	0.928	0.991	0.784	1e-113
359481083	268	PREDICTED: uncharacterized protein LOC10	0.988	0.981	0.768	1e-113
449468279	271	PREDICTED: uncharacterized protein LOC10	0.992	0.974	0.776	1e-113
449484002	271	PREDICTED: uncharacterized protein LOC10	0.992	0.974	0.776	1e-112
388498106	272	unknown [Lotus japonicus]	0.988	0.966	0.773	1e-111
357508739	265	Protein vip1 [Medicago truncatula] gi|87	0.992	0.996	0.765	1e-111
357508737	267	Protein vip1 [Medicago truncatula] gi|35	1.0	0.996	0.760	1e-111
388501130	265	unknown [Medicago truncatula]	0.992	0.996	0.761	1e-111

>gi|224146020|ref|XP_002325850.1| predicted protein [Populus trichocarpa] gi|222862725|gb|EEF00232.1| predicted protein [Populus trichocarpa]

 Score =  433 bits (1113), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 220/268 (82%), Positives = 241/268 (89%), Gaps = 4/268 (1%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLL 62
           QTRTV+V+NVSDLA ERE+HEFFSFSG+IE I I RE GQSKTAFVTFKD KALEIALLL
Sbjct: 7   QTRTVEVRNVSDLASEREVHEFFSFSGEIEHIHIQRENGQSKTAFVTFKDPKALEIALLL 66

Query: 63  SGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPS----GNNEGKTSPSSSGRMYV 118
           SGAT+VD+IV+ITPAENYV   E QEV  V NAVS  PS     N EGKTSPS SGR+YV
Sbjct: 67  SGATLVDRIVTITPAENYVLNRELQEVRNVENAVSVVPSENFPSNVEGKTSPSGSGRVYV 126

Query: 119 NRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGIS 178
           +RAQEVVTSVLA+GSAI Q+A+NKAKAFDEKH+ +A+AS KV SFDRRVG TEKLT+GIS
Sbjct: 127 SRAQEVVTSVLAKGSAISQDAMNKAKAFDEKHRLSASASEKVTSFDRRVGLTEKLTIGIS 186

Query: 179 VVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARA 238
           VVNEKVKSVDQRLHVSDKTMAAIFAAERK+NDTGSAVK+SRYV+AGTAWLNGAFSKVARA
Sbjct: 187 VVNEKVKSVDQRLHVSDKTMAAIFAAERKLNDTGSAVKSSRYVSAGTAWLNGAFSKVARA 246

Query: 239 GQVAGTKTREKFSVAVSNLTAKESPIAV 266
           GQVAGTKTREKF++AVSNLTAKESPIAV
Sbjct: 247 GQVAGTKTREKFNLAVSNLTAKESPIAV 274

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123716|ref|XP_002319148.1| predicted protein [Populus trichocarpa] gi|222857524|gb|EEE95071.1| predicted protein [Populus trichocarpa]

 Score =  430 bits (1106), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 219/268 (81%), Positives = 239/268 (89%), Gaps = 4/268 (1%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLL 62
           QTRTV+VKNVSDLA ERE+HEFFSFSG+IE I I R++GQSKTAFVTFKD KALEIALLL
Sbjct: 2   QTRTVEVKNVSDLASEREVHEFFSFSGEIENIHIQRDHGQSKTAFVTFKDPKALEIALLL 61

Query: 63  SGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPS----GNNEGKTSPSSSGRMYV 118
           SGATIVDQIV+ITP ENYVP  E QEV  +  A+   PS     N EGKTSPS SGR+YV
Sbjct: 62  SGATIVDQIVAITPVENYVPNRELQEVRNMDIAIHVVPSEDFPSNVEGKTSPSGSGRVYV 121

Query: 119 NRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGIS 178
           +RAQEVVTS+LA+GSAI Q+A+NKAKAFDEKH+ +ANAS KVISFDRRVG TEKLTVGIS
Sbjct: 122 SRAQEVVTSMLAKGSAIGQDAMNKAKAFDEKHRLSANASEKVISFDRRVGLTEKLTVGIS 181

Query: 179 VVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARA 238
           VVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVK+SRYV+AGTAWLNGAFSKVA+A
Sbjct: 182 VVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKSSRYVSAGTAWLNGAFSKVAKA 241

Query: 239 GQVAGTKTREKFSVAVSNLTAKESPIAV 266
           GQVAGTKTR KF+ AVSNLTAKESPIAV
Sbjct: 242 GQVAGTKTRAKFNSAVSNLTAKESPIAV 269

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569508|ref|XP_002525721.1| nucleic acid binding protein, putative [Ricinus communis] gi|223535021|gb|EEF36704.1| nucleic acid binding protein, putative [Ricinus communis]

 Score =  415 bits (1066), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 208/265 (78%), Positives = 230/265 (86%), Gaps = 18/265 (6%)

Query: 2   QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL 61
           QQTRTVQVK++SDLA EREIHEFFSFSG+IE I+I+RE G+S+TAFVTFKD KALEIALL
Sbjct: 3   QQTRTVQVKHLSDLASEREIHEFFSFSGEIEHIDIVRENGESRTAFVTFKDPKALEIALL 62

Query: 62  LSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRA 121
           LSGATIVD+IVSITP ENYVPK E Q                   KTSP ++GRMYVNRA
Sbjct: 63  LSGATIVDKIVSITPVENYVPKRELQ------------------AKTSPPNNGRMYVNRA 104

Query: 122 QEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVN 181
           QEVV+++LA+GSA+ Q+A+NKAKAFDEKHQ TA+ASAKV S DR+VG TEKLTVGISVVN
Sbjct: 105 QEVVSTMLAKGSALGQDAMNKAKAFDEKHQLTASASAKVFSLDRKVGLTEKLTVGISVVN 164

Query: 182 EKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQV 241
           EKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVK+SRYVTAG AWLNGAF KVARAGQ 
Sbjct: 165 EKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKSSRYVTAGAAWLNGAFDKVARAGQA 224

Query: 242 AGTKTREKFSVAVSNLTAKESPIAV 266
           AGTKTREKF++AVSNLTAKESPIAV
Sbjct: 225 AGTKTREKFNMAVSNLTAKESPIAV 249

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359481083|ref|XP_002265170.2| PREDICTED: uncharacterized protein LOC100246079 [Vitis vinifera] gi|296089289|emb|CBI39061.3| unnamed protein product [Vitis vinifera]

 Score =  414 bits (1065), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 206/268 (76%), Positives = 236/268 (88%), Gaps = 5/268 (1%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLL 62
           QTRTVQV +VSDLA EREIHEFFSFSGDIE +EILR+ GQ +TAFVTFKD KALEIALLL
Sbjct: 2   QTRTVQVGHVSDLAGEREIHEFFSFSGDIEHVEILRDSGQLRTAFVTFKDPKALEIALLL 61

Query: 63  SGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSG----NNEGKTSPSSSGRMYV 118
           SGATIVDQ+V+ITP ENYVP  E +EV++  +AV + P G    N EGK +  ++GR+YV
Sbjct: 62  SGATIVDQVVTITPVENYVPTAE-REVSITDDAVCQVPDGDVSPNAEGKATSPNNGRVYV 120

Query: 119 NRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGIS 178
           N+AQ+VVTS+LA+GSAI Q+A+NKAKAFDEKHQ TA+ASAKVISFDRRVG TEKLTVGIS
Sbjct: 121 NKAQDVVTSMLAKGSAIGQDAMNKAKAFDEKHQLTASASAKVISFDRRVGLTEKLTVGIS 180

Query: 179 VVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARA 238
           VVNEKVKSVDQRLHVSDKTMAA+ AAERK+N+TGSAVKTSRYVTAGT WLNGAF+KVA+A
Sbjct: 181 VVNEKVKSVDQRLHVSDKTMAALLAAERKLNNTGSAVKTSRYVTAGTTWLNGAFTKVAKA 240

Query: 239 GQVAGTKTREKFSVAVSNLTAKESPIAV 266
           GQ+AGTKTREKF +AVSNLTAK+  I V
Sbjct: 241 GQIAGTKTREKFHLAVSNLTAKDPSIVV 268

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449468279|ref|XP_004151849.1| PREDICTED: uncharacterized protein LOC101206093 [Cucumis sativus]

 Score =  412 bits (1058), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 209/269 (77%), Positives = 231/269 (85%), Gaps = 5/269 (1%)

Query: 1   MQ-QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIA 59
           MQ QTRTVQVK+VSDLA EREIHEFFSFSG+IE IEI  E G+SKTAFVTF D KALEIA
Sbjct: 1   MQSQTRTVQVKHVSDLATEREIHEFFSFSGEIEHIEIQCEQGESKTAFVTFTDPKALEIA 60

Query: 60  LLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNN----EGKTSPSSSGR 115
           LLLSGATIVD+IVSITPAEN+VP+ E QEV V  NA    P+ NN    E   S  SSG+
Sbjct: 61  LLLSGATIVDKIVSITPAENHVPRREMQEVRVADNAACLTPTENNSPSIEDSASQPSSGK 120

Query: 116 MYVNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTV 175
           MYVNRAQEVV +VLA+GSAI Q+A+NKAKAFDEKHQ TA+ASAKV+SFDRRVG TEKLTV
Sbjct: 121 MYVNRAQEVVATVLAKGSAIGQDAMNKAKAFDEKHQLTASASAKVLSFDRRVGLTEKLTV 180

Query: 176 GISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKV 235
           GISVVNEKVKSVDQ+LHVSDKTMAAIFAAERK+NDTGSAVKTS+YVTA  AWLNGAF KV
Sbjct: 181 GISVVNEKVKSVDQKLHVSDKTMAAIFAAERKLNDTGSAVKTSKYVTASAAWLNGAFGKV 240

Query: 236 ARAGQVAGTKTREKFSVAVSNLTAKESPI 264
           A+AGQ AGTKTREKF +A+SNL +KE P+
Sbjct: 241 AKAGQAAGTKTREKFHLAMSNLISKEPPV 269

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449484002|ref|XP_004156755.1| PREDICTED: uncharacterized protein LOC101232015 [Cucumis sativus]

 Score =  410 bits (1055), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 209/269 (77%), Positives = 231/269 (85%), Gaps = 5/269 (1%)

Query: 1   MQ-QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIA 59
           MQ QTRTVQVK+VSDLA EREIHEFFSFSG+IE IEI  E G+SKTAFVTF D KALEIA
Sbjct: 1   MQSQTRTVQVKHVSDLATEREIHEFFSFSGEIEHIEIQCEQGESKTAFVTFTDPKALEIA 60

Query: 60  LLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNN----EGKTSPSSSGR 115
           LLLSGATIVD+IVSITPAEN+VP+ E QEV V  NA    P+ NN    E   S  SSG+
Sbjct: 61  LLLSGATIVDKIVSITPAENHVPRREMQEVRVGDNAACLTPTENNSPSIEDSASQPSSGK 120

Query: 116 MYVNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTV 175
           MYVNRAQEVV +VLA+GSAI Q+A+NKAKAFDEKHQ TA+ASAKV+SFDRRVG TEKLTV
Sbjct: 121 MYVNRAQEVVATVLAKGSAIGQDAMNKAKAFDEKHQLTASASAKVLSFDRRVGLTEKLTV 180

Query: 176 GISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKV 235
           GISVVNEKVKSVDQ+LHVSDKTMAAIFAAERK+NDTGSAVKTS+YVTA  AWLNGAF KV
Sbjct: 181 GISVVNEKVKSVDQKLHVSDKTMAAIFAAERKLNDTGSAVKTSKYVTASAAWLNGAFGKV 240

Query: 236 ARAGQVAGTKTREKFSVAVSNLTAKESPI 264
           A+AGQ AGTKTREKF +A+SNL +KE P+
Sbjct: 241 AKAGQAAGTKTREKFHLAMSNLISKEPPV 269

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388498106|gb|AFK37119.1| unknown [Lotus japonicus]

 Score =  408 bits (1049), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 208/269 (77%), Positives = 235/269 (87%), Gaps = 6/269 (2%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLL 62
           QTRTVQVK VS+LA EREIHEFFSFSG+IE +EIL EYG+SKT FVTFKDAKALEIALLL
Sbjct: 2   QTRTVQVKQVSNLAGEREIHEFFSFSGEIEHVEILSEYGKSKTTFVTFKDAKALEIALLL 61

Query: 63  SGATIVDQIVSITPAENYVPKPESQEVTVVVNAV---SEAPSGN--NEGKTSPSS-SGRM 116
           SGATIV QIVSI P ENYVP  E  EVTVV NA+   SE  S N   E  +SPSS +GR+
Sbjct: 62  SGATIVGQIVSIAPVENYVPNREMLEVTVVENAINVASEHVSLNIEEEKPSSPSSVNGRV 121

Query: 117 YVNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVG 176
           Y++RAQ  V+S+LA+GSAI+Q+AVNKAKAFDEKHQ T+NASAKVISFD+RVG TEKLTVG
Sbjct: 122 YLSRAQVAVSSMLAKGSAIKQDAVNKAKAFDEKHQLTSNASAKVISFDKRVGLTEKLTVG 181

Query: 177 ISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVA 236
           +S +NEKVKSVDQRLHVSDKTMAAIFAAERK+NDTGSAVKTSRYVTAGT+WLNGAFSK A
Sbjct: 182 LSAMNEKVKSVDQRLHVSDKTMAAIFAAERKLNDTGSAVKTSRYVTAGTSWLNGAFSKAA 241

Query: 237 RAGQVAGTKTREKFSVAVSNLTAKESPIA 265
           + G VA T+TREKF++AVSNLTAK+SP+A
Sbjct: 242 KVGHVASTRTREKFNMAVSNLTAKDSPVA 270

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357508739|ref|XP_003624658.1| Protein vip1 [Medicago truncatula] gi|87162638|gb|ABD28433.1| RNA-binding region RNP-1 (RNA recognition motif) [Medicago truncatula] gi|355499673|gb|AES80876.1| Protein vip1 [Medicago truncatula]

 Score =  407 bits (1046), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 202/264 (76%), Positives = 230/264 (87%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLL 62
           QTRTVQVK +SDLA EREIHEFFSFSG+IE I+I+REYG+ KTAFVTFKD +ALEIALLL
Sbjct: 2   QTRTVQVKQLSDLATEREIHEFFSFSGEIEHIQIVREYGKPKTAFVTFKDPRALEIALLL 61

Query: 63  SGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQ 122
           SGATIVDQIVSI+P ENYV   E+QEV VV  A++ AP             GR+Y+++AQ
Sbjct: 62  SGATIVDQIVSISPVENYVANRETQEVGVVEYAINIAPEDAASNTEEEKPGGRIYLSKAQ 121

Query: 123 EVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNE 182
           +VVT++LA+GSAIRQ+AVNKAKAFDEKHQ TANASAKV +FD+RVG TEKLTVG+SVVNE
Sbjct: 122 DVVTTMLAKGSAIRQDAVNKAKAFDEKHQLTANASAKVSNFDKRVGLTEKLTVGLSVVNE 181

Query: 183 KVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVA 242
           KVKSVDQRLHVSDKTMAAIFAAERK+NDTGSAVKTSRYVTAGT WL GAFSKVARAG VA
Sbjct: 182 KVKSVDQRLHVSDKTMAAIFAAERKLNDTGSAVKTSRYVTAGTTWLTGAFSKVARAGNVA 241

Query: 243 GTKTREKFSVAVSNLTAKESPIAV 266
           GTKTREKF++AVSNLT+KE+ + V
Sbjct: 242 GTKTREKFNMAVSNLTSKETSLVV 265

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357508737|ref|XP_003624657.1| Protein vip1 [Medicago truncatula] gi|355499672|gb|AES80875.1| Protein vip1 [Medicago truncatula]

 Score =  406 bits (1044), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 203/267 (76%), Positives = 232/267 (86%), Gaps = 1/267 (0%)

Query: 1   MQ-QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIA 59
           MQ +TRTVQVK +SDLA EREIHEFFSFSG+IE I+I+REYG+ KTAFVTFKD +ALEIA
Sbjct: 1   MQVKTRTVQVKQLSDLATEREIHEFFSFSGEIEHIQIVREYGKPKTAFVTFKDPRALEIA 60

Query: 60  LLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVN 119
           LLLSGATIVDQIVSI+P ENYV   E+QEV VV  A++ AP             GR+Y++
Sbjct: 61  LLLSGATIVDQIVSISPVENYVANRETQEVGVVEYAINIAPEDAASNTEEEKPGGRIYLS 120

Query: 120 RAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISV 179
           +AQ+VVT++LA+GSAIRQ+AVNKAKAFDEKHQ TANASAKV +FD+RVG TEKLTVG+SV
Sbjct: 121 KAQDVVTTMLAKGSAIRQDAVNKAKAFDEKHQLTANASAKVSNFDKRVGLTEKLTVGLSV 180

Query: 180 VNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAG 239
           VNEKVKSVDQRLHVSDKTMAAIFAAERK+NDTGSAVKTSRYVTAGT WL GAFSKVARAG
Sbjct: 181 VNEKVKSVDQRLHVSDKTMAAIFAAERKLNDTGSAVKTSRYVTAGTTWLTGAFSKVARAG 240

Query: 240 QVAGTKTREKFSVAVSNLTAKESPIAV 266
            VAGTKTREKF++AVSNLT+KE+ + V
Sbjct: 241 NVAGTKTREKFNMAVSNLTSKETSLVV 267

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388501130|gb|AFK38631.1| unknown [Medicago truncatula]

 Score =  405 bits (1041), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 201/264 (76%), Positives = 229/264 (86%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLL 62
           QTRTVQVK +SDLA EREIHEFFSFSG+IE I+I+REYG+ KTAFVTFKD +ALEIALLL
Sbjct: 2   QTRTVQVKQLSDLATEREIHEFFSFSGEIEHIQIVREYGKPKTAFVTFKDPRALEIALLL 61

Query: 63  SGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQ 122
           SGA IVDQIVSI+P ENYV   E+QEV VV  A++ AP             GR+Y+++AQ
Sbjct: 62  SGAAIVDQIVSISPVENYVANRETQEVGVVEYAINIAPEDAASNTEEEKPGGRIYLSKAQ 121

Query: 123 EVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNE 182
           +VVT++LA+GSAIRQ+AVNKAKAFDEKHQ TANASAKV +FD+RVG TEKLTVG+SVVNE
Sbjct: 122 DVVTTMLAKGSAIRQDAVNKAKAFDEKHQLTANASAKVSNFDKRVGLTEKLTVGLSVVNE 181

Query: 183 KVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVA 242
           KVKSVDQRLHVSDKTMAAIFAAERK+NDTGSAVKTSRYVTAGT WL GAFSKVARAG VA
Sbjct: 182 KVKSVDQRLHVSDKTMAAIFAAERKLNDTGSAVKTSRYVTAGTTWLTGAFSKVARAGNVA 241

Query: 243 GTKTREKFSVAVSNLTAKESPIAV 266
           GTKTREKF++AVSNLT+KE+ + V
Sbjct: 242 GTKTREKFNMAVSNLTSKETSLVV 265

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	266
TAIR|locus:2145806	267	AT5G32450 [Arabidopsis thalian	1.0	0.996	0.722	4.2e-95
TAIR|locus:2129401	313	AT4G17720 [Arabidopsis thalian	0.887	0.753	0.463	4e-51
TAIR|locus:2172947	295	AT5G46870 [Arabidopsis thalian	0.902	0.813	0.435	1.1e-50
TAIR|locus:2148970	260	BPA1 "binding partner of acd11	0.597	0.611	0.440	2.6e-49
TAIR|locus:2200211	279	AT1G67950 [Arabidopsis thalian	0.454	0.433	0.396	1.1e-42
TAIR|locus:2012567	244	AT1G14340 [Arabidopsis thalian	0.872	0.950	0.368	3.6e-34
TAIR|locus:2102067	249	AT3G01210 [Arabidopsis thalian	0.845	0.903	0.340	4.5e-27
ASPGD|ASPL0000008076	270	AN6004 [Emericella nidulans (t	0.909	0.896	0.264	1.3e-15
DICTYBASE|DDB_G0291155	311	DDB_G0291155 "RNA-binding regi	0.864	0.739	0.247	1.3e-11
POMBASE|SPAC10F6.06	257	vip1 "RNA-binding protein Vip1	0.255	0.264	0.347	1e-06

TAIR|locus:2145806 AT5G32450 [Arabidopsis thaliana (taxid:3702)]

 Score = 946 (338.1 bits), Expect = 4.2e-95, P = 4.2e-95
 Identities = 193/267 (72%), Positives = 228/267 (85%)

Query:     1 MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL 60
             MQ TR+VQV NVSDLA EREIHEFFSFSGDIE IEI +E+GQS+ AFVTF D KALEIAL
Sbjct:     1 MQTTRSVQVNNVSDLATEREIHEFFSFSGDIEHIEIQKEFGQSRIAFVTFTDPKALEIAL 60

Query:    61 LLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEA-PSGNNEGKTSPSSSGRMYVN 119
             LLSGATIVDQIV+IT AENYV + E+QEV ++ NA+         + KT+   + R YV+
Sbjct:    61 LLSGATIVDQIVTITRAENYVQRRETQEVRMLDNAMPLGLQESTTQTKTNMDGNSRAYVS 120

Query:   120 RAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISV 179
             +AQ+VV +VLA+GSA+ Q+AVNKAKAFDEKHQ  ANASAKV SFD+RVG TEKL+VGIS 
Sbjct:   121 KAQDVVATVLAKGSALGQDAVNKAKAFDEKHQLRANASAKVSSFDKRVGLTEKLSVGISA 180

Query:   180 VNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAG 239
             VNEKVKSVDQ+L VSDKTMAAIFAAERK+NDTGSAVK+SRYVTAG AW +GAFSKVAR G
Sbjct:   181 VNEKVKSVDQKLQVSDKTMAAIFAAERKLNDTGSAVKSSRYVTAGAAWFSGAFSKVARVG 240

Query:   240 QVAGTKTREKFSVAVSNLTAKESPIAV 266
             QVAG+KT+EKF++AVSN+++K++PIAV
Sbjct:   241 QVAGSKTKEKFNLAVSNMSSKDTPIAV 267

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA;ISS

TAIR|locus:2129401 AT4G17720 [Arabidopsis thaliana (taxid:3702)]

 Score = 531 (192.0 bits), Expect = 4.0e-51, P = 4.0e-51
 Identities = 115/248 (46%), Positives = 166/248 (66%)

Query:     6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGA 65
             TV+V NVS  A +R++ EFFSFSGDI  +E   E  ++K A+VTFKD +  E A+LLSGA
Sbjct:     5 TVKVSNVSLGATDRDLKEFFSFSGDILYLETQSETERTKLAYVTFKDLQGAETAVLLSGA 64

Query:    66 TIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQEVV 125
             TIVD  V ++ A +Y   PE+          S  P  +N+   SP + G   + +A++VV
Sbjct:    65 TIVDSSVIVSMAPDYQLSPEA--------LASLEPKDSNK---SPKA-GDSVLRKAEDVV 112

Query:   126 TSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVK 185
             +S+LA+G  + ++A+ KAK+ DEKHQ T+ ASAKV SFD+++GFT+K+  G  VV EKV+
Sbjct:   113 SSMLAKGFILGKDAIAKAKSVDEKHQLTSTASAKVASFDKKIGFTDKINTGTVVVGEKVR 172

Query:   186 SVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAGTK 245
              VDQ+  VS+KT +AI AAE+ +++ GSA+  +RYV  G  W+ GAF+KVA+A +  G K
Sbjct:   173 EVDQKYQVSEKTKSAIAAAEQTVSNAGSAIMKNRYVLTGATWVTGAFNKVAKAAEEVGQK 232

Query:   246 TREKFSVA 253
              +EK  +A
Sbjct:   233 AKEKVGMA 240

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005829 "cytosol" evidence=IDA

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

TAIR|locus:2172947 AT5G46870 [Arabidopsis thaliana (taxid:3702)]

 Score = 527 (190.6 bits), Expect = 1.1e-50, P = 1.1e-50
 Identities = 108/248 (43%), Positives = 168/248 (67%)

Query:     6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGA 65
             TV+V NVS  A ER++ EFFSFSGDI  +E   E   SK A+VTFKD +  E A+LL+G+
Sbjct:     5 TVKVSNVSLEATERDLKEFFSFSGDIAYLETQSENDGSKLAYVTFKDLQGAETAVLLTGS 64

Query:    66 TIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQEVV 125
             TIVD  V++T + +Y   P++      + ++ E+    N+  +SP+        +A++VV
Sbjct:    65 TIVDSSVTVTMSPDYQLPPDA---LASIESLKES----NKS-SSPTREDVSVFRKAEDVV 116

Query:   126 TSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVK 185
             + ++++G  + ++A+ KAK+ DEKHQ T+ ASA+V SFD+R+GFTEK+  G +VV+EKVK
Sbjct:   117 SGMISKGFVLGKDAIAKAKSLDEKHQLTSTASARVTSFDKRIGFTEKINTGTTVVSEKVK 176

Query:   186 SVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAGTK 245
              VDQ+  V++KT +AI AAE+ +++ GSA+  +RYV  G  W+ GAF++V++A +  G K
Sbjct:   177 EVDQKFQVTEKTKSAIAAAEQTVSNAGSAIMKNRYVLTGATWVTGAFNRVSKAAEEVGQK 236

Query:   246 TREKFSVA 253
              +EK  +A
Sbjct:   237 AKEKVGLA 244

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

TAIR|locus:2148970 BPA1 "binding partner of acd11 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 352 (129.0 bits), Expect = 2.6e-49, Sum P(2) = 2.6e-49
 Identities = 71/161 (44%), Positives = 109/161 (67%)

Query:    90 TVVVN-AVSEAPSGNNEGKTSPSSSGRMYVNRAQEVVTSVLARGSAIRQEAVNKAKAFDE 148
             +V++  A + +P      +T  SS     V +A++VV+S+LA+G  + ++AV KAKAFDE
Sbjct:    70 SVIIELAPNYSPPAAPHAETQ-SSGAESVVQKAEDVVSSMLAKGFILGKDAVGKAKAFDE 128

Query:   149 KHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKI 208
             KH FT+ A+A V S D+++G ++KLT G S+VNEK+K+VDQ   V+++T +   AAE+ +
Sbjct:   129 KHGFTSTATAGVASLDQKIGLSQKLTAGTSLVNEKIKAVDQNFQVTERTKSVYAAAEQTV 188

Query:   209 NDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAGTKTREK 249
             +  GSAV  +RYV  G +W  GAF++VA+A    G KT+EK
Sbjct:   189 SSAGSAVMKNRYVLTGVSWAAGAFNRVAQAAGEVGQKTKEK 229

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005515 "protein binding" evidence=IPI

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2200211 AT1G67950 [Arabidopsis thaliana (taxid:3702)]

 Score = 260 (96.6 bits), Expect = 1.1e-42, Sum P(2) = 1.1e-42
 Identities = 48/121 (39%), Positives = 82/121 (67%)

Query:   118 VNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGI 177
             V +A++VV  ++ RG A+ ++A+ KAKAFD++H   +NASA + S D ++G +EKL++G 
Sbjct:   125 VKKAEDVVNIMVGRGYALGKDAMEKAKAFDDRHNLISNASATIASLDDKMGLSEKLSIGT 184

Query:   178 SVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVAR 237
             +VVNEK++ +D+R  V + T +A+ AAE       +A+  + YV++G +W + AF  V +
Sbjct:   185 TVVNEKLRDIDERYQVREITKSALAAAEETAISARTALMANPYVSSGASWFSNAFGAVTK 244

Query:   238 A 238
             A
Sbjct:   245 A 245

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM

GO:0019344 "cysteine biosynthetic process" evidence=RCA

TAIR|locus:2012567 AT1G14340 [Arabidopsis thaliana (taxid:3702)]

 Score = 371 (135.7 bits), Expect = 3.6e-34, P = 3.6e-34
 Identities = 88/239 (36%), Positives = 137/239 (57%)

Query:     7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGAT 66
             V+V  +S      ++ +FFSFSG I+ I+I+R   Q+ TA+V FKD+ + E A+LL+GAT
Sbjct:     9 VEVTGLSPSVTHNDLIDFFSFSGTIQDIDIVRSGEQACTAYVMFKDSYSQETAVLLTGAT 68

Query:    67 IVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQEVVT 126
             I+DQ V IT    +  + +    T       +     +  + S  ++G   V +AQEVV 
Sbjct:    69 ILDQRVCITRWGQHHEEFDFWNATS--RGFEDESDSQHYAQRSEFNAGEA-VTKAQEVVK 125

Query:   127 SVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKS 186
              +LA G  + ++A++KAKAFDE H  +A A A+V   ++R+G T+K+  G+    E V+ 
Sbjct:   126 IMLATGFVLGKDALSKAKAFDESHGVSAAAVARVSQLEQRIGLTDKIFTGL----EAVRM 181

Query:   187 VDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAGTK 245
              DQR HVSD   +A+FA  R      ++V  S Y ++G  WL+GA  + A+A    GT+
Sbjct:   182 TDQRYHVSDTAKSAVFATGRTAAAAATSVVNSSYFSSGALWLSGALERAAKAASDLGTR 240

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA;ISS

GO:0006301 "postreplication repair" evidence=RCA

TAIR|locus:2102067 AT3G01210 [Arabidopsis thaliana (taxid:3702)]

 Score = 304 (112.1 bits), Expect = 4.5e-27, P = 4.5e-27
 Identities = 84/247 (34%), Positives = 133/247 (53%)

Query:     8 QVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATI 67
             QV N+S  A E+++H FFS  G +E +EI    G + TA+VTF+DA AL++A+LLSGATI
Sbjct:     9 QVTNLSPQATEKDVHRFFSHCGIVELVEITGCQGDALTAYVTFRDAYALDMAVLLSGATI 68

Query:    68 VDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQEVVTS 127
             VDQ V I+    Y+   ES  +    +  S   + ++   +SP  +    +  AQ+VV +
Sbjct:    69 VDQTVWISVYGVYLH--ESNNLRQEED-YSVTVTRSDAFASSPGEA----ITVAQQVVQT 121

Query:   128 VLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKSV 187
             +LA+G  + ++A+ KAKA DE  +F++  + K+      +G T+ +   +    E V+S 
Sbjct:   122 MLAKGYVLSKDAIGKAKALDESQRFSSLVATKLAEISHYLGLTQNIQSSM----ELVRSA 177

Query:   188 DQRLHVSDKTMAAIF----AAERKINDTG-------SAVKTSRYVTAGTAWLNGAFSKVA 236
             D++ H SD T +A+     AA      TG       ++V  SRY   G  W + A  + A
Sbjct:   178 DEKYHFSDFTKSAVLVTGTAAVAAATITGKVAAAAATSVVNSRYFANGALWFSDALGRAA 237

Query:   237 RAGQVAG 243
             +A    G
Sbjct:   238 KAAAHIG 244

GO:0003676 "nucleic acid binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

ASPGD|ASPL0000008076 AN6004 [Emericella nidulans (taxid:162425)]

 Score = 196 (74.1 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 70/265 (26%), Positives = 117/265 (44%)

Query:     1 MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILR---EYGQSKTAFVTFKDAKALE 57
             M    TV V N+     E+E+ +FFSF G I  I +     E G  K+A VTF+   A +
Sbjct:     1 MSDRTTVHVSNIDPSTSEKEVQDFFSFCGKIVSISVTPTSGEPGSLKSATVTFEKDAAAK 60

Query:    58 IALLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMY 117
              ALLL    +   +V++  A+         E+    +A +      N+         R  
Sbjct:    61 TALLLDQTQLGPSVVTVKAAQTL------DEIAGEHSATAAEAKDENQNDLEQEDKPR-- 112

Query:   118 VNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGI 177
                   ++   LA G  I  +A+ KA A D+KH FT+  ++ + +FD++ G +E+   G+
Sbjct:   113 ----SRIIAEYLAHGYTISDQAIQKAIAIDKKHGFTSRFTSVLSNFDKKTGASERAK-GL 167

Query:   178 SVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVAR 237
                +E  K  D+  + S + + + F  E+ IN T S  K   + +     +    ++  R
Sbjct:   168 ---DESYKISDKAAN-SWRGLHSYF--EKAIN-TPSGRKLRDFYSQTDKQVRDIHAEARR 220

Query:   238 AGQVAGTKTREKFSVAVSNLTAKES 262
                +   KT EK +   S+  A ES
Sbjct:   221 LADLKAGKTEEKKAEGESSSPATES 245

GO:0008150 "biological_process" evidence=ND

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

DICTYBASE|DDB_G0291155 DDB_G0291155 "RNA-binding region RNP-1 domain-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 175 (66.7 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 60/242 (24%), Positives = 104/242 (42%)

Query:     6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILRE-YGQSKTAFVTFKDAKALEIALLLSG 64
             TV V N+S  A+ + + +FFSF G I  + +  +  G S+ A V F+   A + ALLL+ 
Sbjct:     6 TVYVSNISLKANTKTVSDFFSFCGRIVNLFLRNDPTGSSQQAIVVFESDSAAKTALLLTN 65

Query:    65 ATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNN-EGKTSPSSSGRMYVNRAQE 123
             A IVD+++ +     + P+ E      +    S+    NN  G+  P    + YV++ QE
Sbjct:    66 ALIVDKVIQVV---QFTPELEFD----LTQQFSQQQQFNNLSGEQQPQQ--QQYVSQPQE 116

Query:   124 -VVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNE 182
              +V    +     R +    A      +    +A+ K    D     + KL VG   V  
Sbjct:   117 DIVNREHSVPDNERSKTSVVASIIAAGYSVGQDAAIKARQVDEEHMISLKLKVGAEAVKA 176

Query:   183 KVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVA 242
             K   +D  LH+S+   A   A   + N      + S +  + +  ++   S + +A +  
Sbjct:   177 KANEIDNNLHISESAAAIKGAVVERANALDERFQISGFFKSASDMISQQASNLMKAAEEN 236

Query:   243 GT 244
              T
Sbjct:   237 ST 238

GO:0045335 "phagocytic vesicle" evidence=IDA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

POMBASE|SPAC10F6.06 vip1 "RNA-binding protein Vip1" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 98 (39.6 bits), Expect = 1.0e-06, Sum P(2) = 1.0e-06
 Identities = 24/69 (34%), Positives = 38/69 (55%)

Query:     7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGAT 66
             V V N+S    E++I +FFSF G +  I   +  G+++TA + F+   A + ALLL  A 
Sbjct:     5 VIVTNISPEVTEKQISDFFSFCGKVSNISTEKS-GETQTAKIQFERPSATKTALLLQDAL 63

Query:    67 IVDQIVSIT 75
             +    + IT
Sbjct:    64 LGQNKIQIT 72

GO:0003723 "RNA binding" evidence=ISM

GO:0005829 "cytosol" evidence=IDA

GO:0033554 "cellular response to stress" evidence=IEP

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	266
PLN03120	260	PLN03120, PLN03120, nucleic acid binding protein;	1e-122
PLN03121	243	PLN03121, PLN03121, nucleic acid binding protein;	1e-53
cd12269	69	cd12269, RRM_Vip1_like, RNA recognition motif in a	1e-28
cd12268	68	cd12268, RRM_Vip1, RNA recognition motif in fissio	3e-10
cd12259	76	cd12259, RRM_SRSF11_SREK1, RNA recognition motif i	5e-10
smart00360	73	smart00360, RRM, RNA recognition motif	7e-07
cd12271	72	cd12271, RRM1_PHIP1, RNA recognition motif 1 in Ar	9e-06
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	2e-05
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	7e-05
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	1e-04
cd12260	85	cd12260, RRM2_SREK1, RNA recognition motif 2 in sp	1e-04
cd12306	73	cd12306, RRM_II_PABPs, RNA recognition motif in ty	2e-04
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	2e-04
cd12283	73	cd12283, RRM1_RBM39_like, RNA recognition motif 1	3e-04
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	6e-04
cd12395	73	cd12395, RRM2_RBM34, RNA recognition motif 2 in RN	7e-04
cd12408	77	cd12408, RRM_eIF3G_like, RNA recognition motif in	9e-04
cd12391	72	cd12391, RRM1_SART3, RNA recognition motif 1 in sq	0.002
cd12352	72	cd12352, RRM1_TIA1_like, RNA recognition motif 1 i	0.002
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	0.003
cd12237	93	cd12237, RRM_snRNP35, RNA recognition motif found	0.003
cd12460	82	cd12460, RRM2_CID8_like, RNA recognition motif 2 i	0.003

>gnl|CDD|215588 PLN03120, PLN03120, nucleic acid binding protein; Provisional

 Score =  348 bits (896), Expect = e-122
 Identities = 138/275 (50%), Positives = 185/275 (67%), Gaps = 24/275 (8%)

Query: 1   MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL 60
           + Q RTV+V NVS  A ER+I EFFSFSGDIE +E+  E  +S+ A+VTFKD +  E AL
Sbjct: 1   VMQVRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETAL 60

Query: 61  LLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNR 120
           LLSGATIVDQ V+ITPAE+Y   PE         A++   S       SP+S     V +
Sbjct: 61  LLSGATIVDQSVTITPAEDYQLPPE---------ALAPLSS------NSPASGAESAVKK 105

Query: 121 AQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVV 180
           A++VV+S+LA+G  + ++AVNKAKAFDEKHQ T+ ASAKV S D+++G +EKL+ G +VV
Sbjct: 106 AEDVVSSMLAKGFILGKDAVNKAKAFDEKHQLTSTASAKVASLDKKIGLSEKLSAGTAVV 165

Query: 181 NEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQ 240
           NEKVK VDQ+  VS+KT +A+ AAE+K++  GSA+  +RYV  G +W+ GAF+KVA+A +
Sbjct: 166 NEKVKEVDQKYQVSEKTKSALAAAEQKVSSAGSAIMKNRYVLTGASWVTGAFNKVAKAAE 225

Query: 241 VAGTKTREKFSVA---------VSNLTAKESPIAV 266
             G KT+EK   A          +N+   ESP AV
Sbjct: 226 EVGQKTKEKVGAAEEEQQVVDAYANIHLSESPKAV 260

Length = 260

>gnl|CDD|215589 PLN03121, PLN03121, nucleic acid binding protein; Provisional

 Score =  173 bits (441), Expect = 1e-53
 Identities = 97/244 (39%), Positives = 140/244 (57%), Gaps = 7/244 (2%)

Query: 6   TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGA 65
           T +V N+S  A E+++++FFS  G IE +EI+R    + TA+VTFKDA ALE A+LLSGA
Sbjct: 7   TAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVLLSGA 66

Query: 66  TIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQEVV 125
           TIVDQ V IT    Y    E            +  + N E     S+ G   V  AQEVV
Sbjct: 67  TIVDQRVCITRWGQYE--DEFDFWNRPSWDTEDISTHNYETNQFASTPGEA-VTVAQEVV 123

Query: 126 TSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVK 185
            ++LA+G  + ++A++KAKAFDE HQ +A A+AKV    +R+G T+K+  G+    E V+
Sbjct: 124 KTMLAKGYVLGKDALSKAKAFDESHQVSATAAAKVAELSKRIGLTDKIFAGM----EAVR 179

Query: 186 SVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQVAGTK 245
           SVD++ HVS+ T +A  A  R      +AV  S Y + G  W++ A ++ A+A    G  
Sbjct: 180 SVDEKYHVSEFTKSAATATGRTAAAAANAVVNSSYFSKGALWVSDALTRAAKAAADLGAH 239

Query: 246 TREK 249
              +
Sbjct: 240 GSNQ 243

Length = 243

>gnl|CDD|240715 cd12269, RRM_Vip1_like, RNA recognition motif in a group of uncharacterized plant proteins similar to fission yeast Vip1

 Score =  103 bits (258), Expect = 1e-28
 Identities = 46/69 (66%), Positives = 56/69 (81%)

Query: 7  VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGAT 66
          V+V N+S  A ER+I++FFSFSGDIE +EI R   QS+TA+VTFKD +A E ALLLSGAT
Sbjct: 1  VEVTNLSPKATERDIYDFFSFSGDIEYVEIQRSGEQSQTAYVTFKDPQAQETALLLSGAT 60

Query: 67 IVDQIVSIT 75
          IVDQ V+IT
Sbjct: 61 IVDQSVTIT 69

This subfamily corresponds to the Vip1-like, uncharacterized proteins found in plants. Although their biological roles remain unclear, these proteins show high sequence similarity to the fission yeast Vip1. Like Vip1 protein, members in this family contain an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 69

>gnl|CDD|240714 cd12268, RRM_Vip1, RNA recognition motif in fission yeast protein Vip1 and similar proteins

 Score = 54.5 bits (131), Expect = 3e-10
 Identities = 26/69 (37%), Positives = 42/69 (60%), Gaps = 1/69 (1%)

Query: 7  VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGAT 66
          V V N+S    E++I +FFSF G I  ++ L   G+S+TA +TF+   A + ALLL  A 
Sbjct: 1  VYVSNISPKTTEKQISDFFSFCGKISNLD-LTNDGESQTATITFEKPSAAKTALLLDNAL 59

Query: 67 IVDQIVSIT 75
          +  +++ +T
Sbjct: 60 LGGKVIQVT 68

This subfamily corresponds to Vip1, an RNA-binding protein encoded by gene vip1 from fission yeast Schizosaccharomyces pombe. Its biological role remains unclear. Vip1 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 68

>gnl|CDD|240705 cd12259, RRM_SRSF11_SREK1, RNA recognition motif in serine/arginine-rich splicing factor 11 (SRSF11), splicing regulatory glutamine/lysine-rich protein 1 (SREK1) and similar proteins

 Score = 54.2 bits (131), Expect = 5e-10
 Identities = 23/76 (30%), Positives = 37/76 (48%), Gaps = 5/76 (6%)

Query: 6  TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-----QSKTAFVTFKDAKALEIAL 60
           VQV NVS  A E ++   F F G IE + +           SK  FV ++D + + +AL
Sbjct: 1  VVQVTNVSPQATEEQMRTLFGFLGKIEELRLYPSDDDLAPVLSKVCFVKYEDPEDVGVAL 60

Query: 61 LLSGATIVDQIVSITP 76
           L+    +D+ + + P
Sbjct: 61 HLTNTVFIDRALIVVP 76

This subfamily corresponds to the RRM domain of SRSF11 (SRp54 or p54), SREK1 ( SFRS12 or SRrp86) and similar proteins, a group of proteins containing regions rich in serine-arginine dipeptides (SR protein family). These are involved in bridge-complex formation and splicing by mediating protein-protein interactions across either introns or exons. SR proteins have been identified as crucial regulators of alternative splicing. Different SR proteins display different substrate specificity, have distinct functions in alternative splicing of different pre-mRNAs, and can even negatively regulate splicing. All SR family members are characterized by the presence of one or two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and the C-terminal regions rich in serine and arginine dipeptides (SR domains). The RRM domain is responsible for RNA binding and specificity in both alternative and constitutive splicing. In contrast, SR domains are thought to be protein-protein interaction domains that are often interchangeable. . Length = 76

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

 Score = 45.7 bits (109), Expect = 7e-07
 Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 4/73 (5%)

Query: 6  TVQVKNVSDLAHEREIHEFFSFSGDIERIEILR--EYGQSK-TAFVTFKDAKALEIAL-L 61
          T+ V N+     E E+ E FS  G +E + ++R  E G+SK  AFV F+  +  E AL  
Sbjct: 1  TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEA 60

Query: 62 LSGATIVDQIVSI 74
          L+G  +  + + +
Sbjct: 61 LNGKELDGRPLKV 73

Length = 73

>gnl|CDD|240717 cd12271, RRM1_PHIP1, RNA recognition motif 1 in Arabidopsis thaliana phragmoplastin interacting protein 1 (PHIP1) and similar proteins

 Score = 42.3 bits (100), Expect = 9e-06
 Identities = 19/53 (35%), Positives = 33/53 (62%), Gaps = 3/53 (5%)

Query: 18 EREIHEFFSFSGDIERIEILR--EYGQSK-TAFVTFKDAKALEIALLLSGATI 67
          E EI  +FS+ G+IE ++++   + G+ +  AF+TFK  +A + AL L G  +
Sbjct: 12 EDEIRSYFSYCGEIEELDLMTFPDTGRFRGIAFITFKTEEAAKRALALDGEDM 64

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|222631 pfam14259, RRM_6, RNA recognition motif (a

 Score = 41.4 bits (98), Expect = 2e-05
 Identities = 18/64 (28%), Positives = 32/64 (50%), Gaps = 1/64 (1%)

Query: 7  VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSK-TAFVTFKDAKALEIALLLSGA 65
          + V+N+     E ++ EFFS  G +E + ++R   + +  AFV F   +  E AL     
Sbjct: 1  LYVRNLPPSVTEEDLREFFSPYGKVEGVRLVRNKDRPRGFAFVEFASPEDAEAALKKLNG 60

Query: 66 TIVD 69
           ++D
Sbjct: 61 LVLD 64

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

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

 Score = 40.0 bits (94), Expect = 7e-05
 Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 3/71 (4%)

Query: 7  VQVKNVSDLAHEREIHEFFSFSGDIERIEILRE-YGQSK-TAFVTFKDAKALEIAL-LLS 63
          + V N+     E ++ E FS  G+IE + I+R+  G+SK  AFV F+  +  E AL  L+
Sbjct: 1  LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEALN 60

Query: 64 GATIVDQIVSI 74
          G  +  + + +
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|233496 TIGR01622, SF-CC1, splicing factor, CC1-like family

 Score = 43.0 bits (101), Expect = 1e-04
 Identities = 23/77 (29%), Positives = 45/77 (58%), Gaps = 3/77 (3%)

Query: 5   RTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSK-TAFVTFKDAKALEIALL 61
           RTV V  ++  A ER+++EFFS  G +  ++ +  R   +SK  A+V F D +++  AL 
Sbjct: 90  RTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA 149

Query: 62  LSGATIVDQIVSITPAE 78
           L+G  ++ + + +  ++
Sbjct: 150 LTGQMLLGRPIIVQSSQ 166

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|240706 cd12260, RRM2_SREK1, RNA recognition motif 2 in splicing regulatory glutamine/lysine-rich protein 1 (SREK1) and similar proteins

 Score = 39.6 bits (93), Expect = 1e-04
 Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 1/81 (1%)

Query: 5  RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKT-AFVTFKDAKALEIALLLS 63
          RT+ V N+       ++ EFFS +G+++ + +  +  Q    AFV F +  ++  AL L+
Sbjct: 5  RTIYVGNLDPTTTADQLLEFFSQAGEVKYVRMAGDETQPTRYAFVEFAEQTSVINALKLN 64

Query: 64 GATIVDQIVSITPAENYVPKP 84
          GA    + + +  + N + KP
Sbjct: 65 GAMFGGRPLKVNHSNNAIVKP 85

This subfamily corresponds to the RRM2 of SREK1, also termed serine/arginine-rich-splicing regulatory protein 86-kDa (SRrp86), or splicing factor arginine/serine-rich 12 (SFRS12), or splicing regulatory protein 508 amino acid (SRrp508). SREK1 belongs to a family of proteins containing regions rich in serine-arginine dipeptides (SR proteins family), which is involved in bridge-complex formation and splicing by mediating protein-protein interactions across either introns or exons. It is a unique SR family member and it may play a crucial role in determining tissue specific patterns of alternative splicing. SREK1 can alter splice site selection by both positively and negatively modulating the activity of other SR proteins. For instance, SREK1 can activate SRp20 and repress SC35 in a dose-dependent manner both in vitro and in vivo. In addition, SREK1 contains two (some contain only one) RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and two serine-arginine (SR)-rich domains (SR domains) separated by an unusual glutamic acid-lysine (EK) rich region. The RRM and SR domains are highly conserved among other members of the SR superfamily. However, the EK domain is unique to SREK1. It plays a modulatory role controlling SR domain function by involvement in the inhibition of both constitutive and alternative splicing and in the selection of splice-site. . Length = 85

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

 Score = 38.8 bits (91), Expect = 2e-04
 Identities = 23/61 (37%), Positives = 31/61 (50%), Gaps = 3/61 (4%)

Query: 7  VQVKNVSDLAHEREIHEFFSFSGDIERIEILRE--YGQSKT-AFVTFKDAKALEIALLLS 63
          + V NV       E+ E F   G I RI IL +   GQ K  A++ F D  ++E ALLL+
Sbjct: 2  IFVGNVDYGTTPEELQEHFKSCGTINRITILCDKFTGQPKGFAYIEFLDKSSVENALLLN 61

Query: 64 G 64
           
Sbjct: 62 E 62

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

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

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 25/78 (32%), Positives = 42/78 (53%), Gaps = 6/78 (7%)

Query: 5  RTVQVKNVSDLAHEREIHEFFSFSGDIERIEI--LREYGQSKT----AFVTFKDAKALEI 58
          R + V+N+     E ++   FS  G++E I I   ++  Q +     AFVTFKDA + E 
Sbjct: 1  REIYVRNLDFKLDEDDLRGIFSKFGEVESIRIPKKQDEKQGRLNNGFAFVTFKDASSAEN 60

Query: 59 ALLLSGATIVDQIVSITP 76
          AL L+G  +  + +S++ 
Sbjct: 61 ALQLNGTELGGRKISVSL 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|240729 cd12283, RRM1_RBM39_like, RNA recognition motif 1 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins

 Score = 38.4 bits (90), Expect = 3e-04
 Identities = 23/62 (37%), Positives = 38/62 (61%), Gaps = 3/62 (4%)

Query: 6  TVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSK-TAFVTFKDAKALEIALLL 62
          TV V  +S    ER+++EFFS +G +  + I+  R   +SK  A+V F D +++ +AL L
Sbjct: 1  TVFVMQLSLKVRERDLYEFFSKAGKVRDVRIIRDRNSRRSKGVAYVEFYDEESVPLALGL 60

Query: 63 SG 64
          +G
Sbjct: 61 TG 62

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|215696 pfam00076, RRM_1, RNA recognition motif

 Score = 37.2 bits (87), Expect = 6e-04
 Identities = 24/62 (38%), Positives = 35/62 (56%), Gaps = 3/62 (4%)

Query: 9  VKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSK-TAFVTFKDAKALEIAL-LLSGA 65
          V N+     E ++ + FS  G IE I I+R+  G+SK  AFV F+D +  E AL  L+G 
Sbjct: 3  VGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKGFAFVEFEDEEDAEKALEALNGK 62

Query: 66 TI 67
           +
Sbjct: 63 EL 64

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

 Score = 37.1 bits (87), Expect = 7e-04
 Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 3/53 (5%)

Query: 18 EREIHEFFSFSGDIERIEILR--EYGQSKT-AFVTFKDAKALEIALLLSGATI 67
          E E+ + F   GD+E + I+R  + G  K   +V FK   ++ +AL L+G  +
Sbjct: 13 EEELRKHFEDCGDVEAVRIVRDRKTGIGKGFGYVLFKTKDSVALALKLNGIKL 65

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

 Score = 36.7 bits (86), Expect = 9e-04
 Identities = 21/59 (35%), Positives = 34/59 (57%), Gaps = 7/59 (11%)

Query: 6  TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKT-AFVTFKD----AKALE 57
          T++V N+S+ A E ++ E F   G I R+ + ++   GQS+  AFVTF       +A+E
Sbjct: 1  TIRVTNLSEDADEDDLRELFRPFGPISRVYLAKDKETGQSRGFAFVTFHTREDAERAIE 59

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

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

 Score = 35.7 bits (83), Expect = 0.002
 Identities = 20/59 (33%), Positives = 36/59 (61%), Gaps = 2/59 (3%)

Query: 6  TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSKT-AFVTFKDAKALEIALLL 62
          TV V N+     E E+ + FS  G+I  + +++ Y G+SK  A+V F++ ++++ AL L
Sbjct: 1  TVFVSNLDYSVPEDELRKLFSKCGEITDVRLVKNYKGKSKGYAYVEFENEESVQEALKL 59

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

 Score = 35.7 bits (83), Expect = 0.002
 Identities = 20/69 (28%), Positives = 36/69 (52%), Gaps = 1/69 (1%)

Query: 7  VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGA 65
          + V N+     E  + E FS  G I+  +++RE+G    AFV + D ++   AL  ++G 
Sbjct: 1  LYVGNLDRTVTEDLLAELFSQIGPIKSCKLIREHGNDPYAFVEYYDHRSAAAALQTMNGR 60

Query: 66 TIVDQIVSI 74
           I+ Q + +
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|240861 cd12415, RRM3_RBM28_like, RNA recognition motif 3 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 35.6 bits (83), Expect = 0.003
 Identities = 27/82 (32%), Positives = 43/82 (52%), Gaps = 9/82 (10%)

Query: 5  RTVQVKNVSDLAHEREIHEFFSFSGDIE--RIEILREYGQSK-TAFVTFKDAKALEIAL- 60
          RTV ++N+   A E E+ E FS  G+++  RI   +  G SK TAFV FK  ++ +  L 
Sbjct: 1  RTVFIRNLPFDATEEELKELFSQFGEVKYARIVKDKLTGHSKGTAFVKFKTKESAQKCLE 60

Query: 61 -----LLSGATIVDQIVSITPA 77
                 SG ++  + + +T A
Sbjct: 61 AADNAEDSGLSLDGRRLIVTLA 82

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

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

 Score = 35.7 bits (83), Expect = 0.003
 Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 3/69 (4%)

Query: 5  RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKT-AFVTFKDAKALEIALL 61
           T+ V  +S    E  + E FS  GDI R+ ++R+   G SK  AFV ++  +    A  
Sbjct: 4  LTLFVGRLSLQTTEETLREVFSRYGDIRRLRLVRDIVTGFSKGYAFVEYEHERDALRAYR 63

Query: 62 LSGATIVDQ 70
           +   ++D 
Sbjct: 64 DAHKLVIDG 72

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

>gnl|CDD|240906 cd12460, RRM2_CID8_like, RNA recognition motif 2 in Arabidopsis thaliana CTC-interacting domain protein CID8, CID9, CID10, CID11, CID12, CID 13 and similar proteins

 Score = 35.5 bits (82), Expect = 0.003
 Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 2/77 (2%)

Query: 4  TRTVQVKNVSDLAHEREIHEFF-SFSGDIERIEILREYGQS-KTAFVTFKDAKALEIALL 61
           RT+   N+     + ++  FF S  G++ R+ +L +Y  S + AFV F  A++   AL 
Sbjct: 4  ARTIYCTNIDKKVTQSDVKLFFESLCGEVSRLRLLGDYHHSTRIAFVEFAMAESAIAALN 63

Query: 62 LSGATIVDQIVSITPAE 78
           SGA +    + ++P++
Sbjct: 64 CSGAVLGSLPIRVSPSK 80

This subgroup corresponds to the RRM2 domains found in A. thaliana CID8, CID9, CID10, CID11, CID12, CID 13 and mainly their plant homologs. These highly related RNA-binding proteins contain an N-terminal PAM2 domain (PABP-interacting motif 2), two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a basic region that resembles a bipartite nuclear localization signal. The biological role of this family remains unclear. Length = 82

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	266
PLN03120	260	nucleic acid binding protein; Provisional	100.0
PLN03121	243	nucleic acid binding protein; Provisional	100.0
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.59
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.57
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.5
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.48
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.46
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.44
smart00362	72	RRM_2 RNA recognition motif.	99.38
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.38
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.34
PLN03213	759	repressor of silencing 3; Provisional	99.31
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.3
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.29
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.28
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.27
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.26
smart00360	71	RRM RNA recognition motif.	99.26
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.24
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.24
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.24
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.23
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.21
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.19
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.19
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.17
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.15
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.15
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.09
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.08
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.07
KOG4207	256	consensus Predicted splicing factor, SR protein su	99.05
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.03
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.03
KOG0122	270	consensus Translation initiation factor 3, subunit	99.02
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.99
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.96
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.95
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.92
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.91
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	98.9
smart00361	70	RRM_1 RNA recognition motif.	98.89
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.89
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	98.84
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	98.82
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	98.81
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.77
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	98.76
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.73
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	98.72
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.71
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	98.7
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	98.68
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	98.62
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.53
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	98.51
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.49
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	98.48
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.47
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	98.46
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	98.44
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	98.44
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	98.42
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	98.42
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	98.41
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.4
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	98.4
KOG1548	382	consensus Transcription elongation factor TAT-SF1	98.38
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.31
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.29
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.29
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.25
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	98.21
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	98.19
KOG0533	243	consensus RRM motif-containing protein [RNA proces	98.16
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.08
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.06
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	97.97
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	97.97
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	97.97
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.9
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.86
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	97.85
KOG4660	549	consensus Protein Mei2, essential for commitment t	97.85
KOG1995	351	consensus Conserved Zn-finger protein [General fun	97.78
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	97.76
KOG1457	284	consensus RNA binding protein (contains RRM repeat	97.76
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	97.76
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	97.69
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.61
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	97.57
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	97.34
KOG4210	285	consensus Nuclear localization sequence binding pr	97.19
KOG1457	284	consensus RNA binding protein (contains RRM repeat	97.09
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.02
KOG3152	278	consensus TBP-binding protein, activator of basal	96.96
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	96.96
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.95
KOG0151	877	consensus Predicted splicing regulator, contains R	96.94
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.71
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	96.56
KOG1855	484	consensus Predicted RNA-binding protein [General f	96.27
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	96.22
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	96.04
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	95.72
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	95.71
KOG1548	382	consensus Transcription elongation factor TAT-SF1	95.64
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	95.51
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	95.5
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	95.39
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	95.1
PLN03120	260	nucleic acid binding protein; Provisional	94.99
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	94.7
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	94.43
KOG0226	290	consensus RNA-binding proteins [General function p	94.27
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	94.26
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	93.92
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	93.61
KOG2314	698	consensus Translation initiation factor 3, subunit	93.17
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	93.16
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	92.98
PLN03121	243	nucleic acid binding protein; Provisional	92.9
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	92.74
KOG1996	378	consensus mRNA splicing factor [RNA processing and	92.44
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	92.12
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	91.7
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	91.24
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	89.84
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	89.45
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	89.17
KOG2068	327	consensus MOT2 transcription factor [Transcription	88.02
KOG2135	526	consensus Proteins containing the RNA recognition	87.6
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	87.37
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	86.35
KOG2253	668	consensus U1 snRNP complex, subunit SNU71 and rela	85.1
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	84.55
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	84.38
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	83.73
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	82.49
PF03468	116	XS: XS domain; InterPro: IPR005380 The XS (rice ge	82.24

>PLN03120 nucleic acid binding protein; Provisional

Probab=100.00  E-value=3.6e-80  Score=562.03  Aligned_cols=242  Identities=54%  Similarity=0.775  Sum_probs=224.9

Q ss_pred             CCCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCCC
Q 024507            1 MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAENY   80 (266)
Q Consensus         1 M~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~~   80 (266)
                      |.+.++|||+|||+.+||++|++||++||+|++|+|+.+++++|||||+|++++++++||+|||..|+|++|+|+++.+|
T Consensus         1 ~~~~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~~~   80 (260)
T PLN03120          1 VMQVRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAEDY   80 (260)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEeccCC
Confidence            45679999999999999999999999999999999999987789999999999999999999999999999999999999


Q ss_pred             CCCCCCchhhhhhccccCCCCCCCCCCCCCCCCCccccchHHHHHHHHhhccchhcHHHHHHHHHhhhhcCCcHHHHHHH
Q 024507           81 VPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSGRMYVNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANASAKV  160 (266)
Q Consensus        81 ~~~P~~~~~~~~~~~~~~~~~~~~~~~d~p~s~~~~~~~~aq~Iva~~LA~Gyvl~d~ai~KA~~fDekhgiSs~~~~~v  160 (266)
                      .+||....        .. +      .+.+.++++.+++++|+||++||||||+||||+|+|||+|||+||||++|+++|
T Consensus        81 ~~p~~~~~--------~~-~------~~~~~~~~~~~~~~a~~vva~mLAkGy~l~~dA~~kAk~fDekH~~ss~a~a~v  145 (260)
T PLN03120         81 QLPPEALA--------PL-S------SNSPASGAESAVKKAEDVVSSMLAKGFILGKDAVNKAKAFDEKHQLTSTASAKV  145 (260)
T ss_pred             CCCccccc--------cc-c------cccCCCCccchhhHHHHHHHHHHhhhhhhhHHHHHHHHHHHHhhchHHHHHHHH
Confidence            98866421        00 0      112333445688999999999999999999999999999999999999999999


Q ss_pred             hhhhhccCcccccccchhhhhhhhhhccccccccHHHHHHHHHHHHhhhhhccccccCcccccchhhhhhHHHHHHHhhh
Q 024507          161 ISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARAGQ  240 (266)
Q Consensus       161 ~~lD~k~g~tek~~~g~~~v~~k~k~vD~~~~vs~kt~sa~~~a~~~~~~a~sa~~~~~y~~~ga~wvs~a~~~~akaa~  240 (266)
                      .+||+||||||||++|+++||+++|+||||||||+||++|+.++||+++++|+|||+||||++||+||||||+||||||.
T Consensus       146 ~~~d~k~gltek~~~g~~~v~~~~k~vDeky~vs~kt~sa~~~~~~~~~~a~sai~~~~y~~~ga~w~~~a~~~~a~aa~  225 (260)
T PLN03120        146 ASLDKKIGLSEKLSAGTAVVNEKVKEVDQKYQVSEKTKSALAAAEQKVSSAGSAIMKNRYVLTGASWVTGAFNKVAKAAE  225 (260)
T ss_pred             HhhhhhcCcccccccchHHHHHHHHhhhhhhchhHHHHHHHHHHHHHHHHHHHHHhcCcccccchHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhhhHHHHHHhhhhc
Q 024507          241 VAGTKTREKFSVAVSNL  257 (266)
Q Consensus       241 ~~~~~~~~~~~~~~~~~  257 (266)
                      |+|+|++|||+++++++
T Consensus       226 ~~~~~~~~~~~~~~~~~  242 (260)
T PLN03120        226 EVGQKTKEKVGAAEEEQ  242 (260)
T ss_pred             HHhhhhHHHHhhhhhhc
Confidence            99999999999988776

>PLN03121 nucleic acid binding protein; Provisional

Probab=100.00  E-value=9.2e-77  Score=533.73  Aligned_cols=238  Identities=41%  Similarity=0.542  Sum_probs=215.2

Q ss_pred             CC-CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            1 MQ-QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         1 M~-~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      |+ .++||+|+||++.+||++|++||++||+|.+|+|+++++..++|||+|++++++++||+|||++|+|++|+|+++.+
T Consensus         1 m~~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~~   80 (243)
T PLN03121          1 MYPGGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWGQ   80 (243)
T ss_pred             CCCCceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCcc
Confidence            44 47899999999999999999999999999999999998888999999999999999999999999999999999999


Q ss_pred             CCCCCCCchhhhhhccccCCCCC---CCCCCCCCCCCCccccchHHHHHHHHhhccchhcHHHHHHHHHhhhhcCCcHHH
Q 024507           80 YVPKPESQEVTVVVNAVSEAPSG---NNEGKTSPSSSGRMYVNRAQEVVTSVLARGSAIRQEAVNKAKAFDEKHQFTANA  156 (266)
Q Consensus        80 ~~~~P~~~~~~~~~~~~~~~~~~---~~~~~d~p~s~~~~~~~~aq~Iva~~LA~Gyvl~d~ai~KA~~fDekhgiSs~~  156 (266)
                      |.+||..-      +.....+++   ...+...+.+.++.+++++|+||++||||||+||+|+|+|||+|||+||||+++
T Consensus        81 y~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~p~~a~~~aq~Vv~tmLAkGyvLgkda~~KAkafDE~h~lss~a  154 (243)
T PLN03121         81 YEDEFDFW------NRPSWDTEDISTHNYETNQFASTPGEAVTVAQEVVKTMLAKGYVLGKDALSKAKAFDESHQVSATA  154 (243)
T ss_pred             cccCcccc------cCccccccccccccccccccCCCchhhHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhcCccHhh
Confidence            99988741      111111110   112222344456678999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhhccCcccccccchhhhhhhhhhccccccccHHHHHHHHHHHHhhhhhccccccCcccccchhhhhhHHHHHH
Q 024507          157 SAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVA  236 (266)
Q Consensus       157 ~~~v~~lD~k~g~tek~~~g~~~v~~k~k~vD~~~~vs~kt~sa~~~a~~~~~~a~sa~~~~~y~~~ga~wvs~a~~~~a  236 (266)
                      .++|.+||+|+||||||++|+    +++|+|||||||||+||||+.++||++++||||||+||||++||+||||||+|||
T Consensus       155 ~a~v~~~d~~iglt~k~~~g~----~~vk~vDeky~vs~~tksA~~aa~~~~~~a~sai~~~~Y~~~Ga~w~sga~~~~a  230 (243)
T PLN03121        155 AAKVAELSKRIGLTDKIFAGM----EAVRSVDEKYHVSEFTKSAATATGRTAAAAANAVVNSSYFSKGALWVSDALTRAA  230 (243)
T ss_pred             hhhhhhhhhhccchhhhhhhH----HHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhhhhhhcchhhcchHHHHHHHHHHH
Confidence            999999999999999999999    8899999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhhhhhhhHH
Q 024507          237 RAGQVAGTKTRE  248 (266)
Q Consensus       237 kaa~~~~~~~~~  248 (266)
                      |||.|+|+++++
T Consensus       231 kaa~~~g~~~~~  242 (243)
T PLN03121        231 KAAADLGAHGSN  242 (243)
T ss_pred             HHHHHhhccccC
Confidence            999999999875

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

Probab=99.59  E-value=1e-14  Score=122.70  Aligned_cols=76  Identities=17%  Similarity=0.341  Sum_probs=70.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+||++.+||++|+++|+.||+|.+|+|+.+..   .++||||+|+++++|+.|| .|||..|+|+.|+|..+..
T Consensus        34 ~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~  113 (144)
T PLN03134         34 STKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAND  113 (144)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCc
Confidence            57899999999999999999999999999999998863   4789999999999999999 5999999999999998754

>PF00076 RRM_1: RNA recognition motif

Probab=99.57  E-value=1.1e-14  Score=104.08  Aligned_cols=67  Identities=33%  Similarity=0.474  Sum_probs=62.5

Q ss_pred             EEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEE
Q 024507            7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVS   73 (266)
Q Consensus         7 V~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~   73 (266)
                      |||+|||+.+|+++|+++|+.||+|.++.+..+.  ...++|||+|+++++++.|+. |||..++|+.|+
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            7999999999999999999999999999999863  346899999999999999996 999999999985

(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 ....

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

Probab=99.50  E-value=4e-14  Score=117.91  Aligned_cols=80  Identities=31%  Similarity=0.342  Sum_probs=73.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ++||||+|||..++|++|.|+|+.||+|..|.|--|+.   +.|||||+|-..++|+.|| -+||+.|++++|+|.....
T Consensus        36 S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~G  115 (153)
T KOG0121|consen   36 SCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAG  115 (153)
T ss_pred             cceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecccc
Confidence            58999999999999999999999999999999988873   4699999999999999999 5999999999999998877


Q ss_pred             CCCC
Q 024507           80 YVPK   83 (266)
Q Consensus        80 ~~~~   83 (266)
                      +.+-
T Consensus       116 F~eG  119 (153)
T KOG0121|consen  116 FVEG  119 (153)
T ss_pred             chhh
Confidence            7764

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.48  E-value=1.6e-13  Score=127.24  Aligned_cols=74  Identities=19%  Similarity=0.337  Sum_probs=68.8

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ++|||+|||+.+++++|+++|+.||.|++++|+.+.   ..+|||||+|.++++|..|+ .|||..|+||.|+|....
T Consensus       270 ~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~  347 (352)
T TIGR01661       270 YCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKT  347 (352)
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcc
Confidence            479999999999999999999999999999999886   35799999999999999999 599999999999998754

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

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.46  E-value=3.6e-13  Score=97.58  Aligned_cols=67  Identities=25%  Similarity=0.438  Sum_probs=59.2

Q ss_pred             EEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHHH-hcCCeecCeeEE
Q 024507            7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIALL-LSGATIVDQIVS   73 (266)
Q Consensus         7 V~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~   73 (266)
                      |+|+|||+.+++++|++||+.+|.|..|.+..++.  .+++|||+|.+++.+..|+. ++|..|+|+.|.
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            79999999999999999999999999999998752  46899999999999999995 666999999874

k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.44  E-value=3.6e-13  Score=124.94  Aligned_cols=75  Identities=20%  Similarity=0.352  Sum_probs=69.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..+|||+|||+.+||++|++||+.||+|.+|+|+.+..   ..|||||+|.++++|+.|| .|||..|.|+.|.|..+.
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~   81 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR   81 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence            46899999999999999999999999999999998862   4689999999999999999 599999999999997653

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

>smart00362 RRM_2 RNA recognition motif

Probab=99.38  E-value=2.5e-12  Score=89.79  Aligned_cols=70  Identities=27%  Similarity=0.404  Sum_probs=64.0

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC-CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEE
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSIT   75 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~-~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~   75 (266)
                      +|+|+|||+.+++++|+++|+.+|+|..+.+..+. ...++|||+|.++++++.|+ .|+|..+.|+.|.|.
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            58999999999999999999999999999999775 34689999999999999999 599999999999873

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.38  E-value=1.4e-12  Score=124.11  Aligned_cols=74  Identities=24%  Similarity=0.366  Sum_probs=68.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+||++|+++|+.||+|++|+|+.+..   .++||||+|.++++|+.|| .|||..|.+++|+|..+
T Consensus       107 ~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a  184 (346)
T TIGR01659       107 GTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYA  184 (346)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecc
Confidence            57999999999999999999999999999999998853   4689999999999999999 59999999999999865

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).

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

Probab=99.34  E-value=3.8e-12  Score=122.54  Aligned_cols=74  Identities=27%  Similarity=0.457  Sum_probs=69.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+++++|++||+.||+|.+|.|+.+.   ..+|+|||+|.+.++|..||.|||..|.|++|.|...
T Consensus        89 ~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~~  165 (457)
T TIGR01622        89 DRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSS  165 (457)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEeec
Confidence            5799999999999999999999999999999999875   2478999999999999999999999999999999764

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.

>PLN03213 repressor of silencing 3; Provisional

Probab=99.31  E-value=5.4e-12  Score=123.67  Aligned_cols=75  Identities=16%  Similarity=0.324  Sum_probs=69.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecCh--HHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDA--KALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~--~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ..+|||+||++.+|+++|+..|+.||.|.+|+|+++.+ +|||||+|..+  .++.+|+ .|||+.+.||.|+|..+..
T Consensus        10 gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETG-RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP   87 (759)
T PLN03213         10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKG-RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE   87 (759)
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccC-CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence            46899999999999999999999999999999997767 89999999988  6899999 6999999999999988754

>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=99.30  E-value=2e-11  Score=85.62  Aligned_cols=70  Identities=30%  Similarity=0.455  Sum_probs=64.7

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEE
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSIT   75 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~   75 (266)
                      +|+|+|||+.+++++|+++|+.||.|..+.+..++.  ..++|||+|.+++++..|+ .+++..+.|+.|.|.
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            589999999999999999999999999999998763  4789999999999999999 599999999999885

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).

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

Probab=99.29  E-value=8.9e-12  Score=126.11  Aligned_cols=77  Identities=22%  Similarity=0.261  Sum_probs=70.2

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+||++.++|++|+++|+.||.|.+|+|..|.   .++|||||+|+++++++.|+ .|||..|+||.|+|....
T Consensus       106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~  185 (612)
T TIGR01645       106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS  185 (612)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccc
Confidence            35799999999999999999999999999999999885   35799999999999999999 599999999999998644


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      +
T Consensus       186 ~  186 (612)
T TIGR01645       186 N  186 (612)
T ss_pred             c
Confidence            3

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

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

Probab=99.28  E-value=7.7e-12  Score=117.37  Aligned_cols=76  Identities=18%  Similarity=0.317  Sum_probs=70.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC-CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~-~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .+.+||+|||+...|-||+..|..+|+|.+|+|+-++ +++||+||||+++++++.|- .|+|+++.||.|.|..+.-
T Consensus        96 pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATa  173 (376)
T KOG0125|consen   96 PKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATA  173 (376)
T ss_pred             CceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccch
Confidence            4789999999999999999999999999999999765 78999999999999999998 7999999999999987743

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

Probab=99.27  E-value=1.3e-11  Score=122.48  Aligned_cols=73  Identities=15%  Similarity=0.207  Sum_probs=67.8

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .+|||+||++++||++|++||+.||.|.+|+|.+|..   ..|+|||+|.++++|+.|| .||+..|.|++|+|...
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   77 (562)
T TIGR01628         1 ASLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWS   77 (562)
T ss_pred             CeEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecc
Confidence            3799999999999999999999999999999999863   4689999999999999999 69999999999999764

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.26  E-value=1.9e-11  Score=116.29  Aligned_cols=76  Identities=22%  Similarity=0.306  Sum_probs=68.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecC--eeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVD--QIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g--~~I~V~~a   77 (266)
                      .++|||+|||+.+||++|+++|+.||+|.+++|+.+..   .+++|||+|++.++|+.|| .|||..|.+  ++|+|..+
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            36899999999999999999999999999999998852   4689999999999999999 599999976  68999877


Q ss_pred             CC
Q 024507           78 EN   79 (266)
Q Consensus        78 ~~   79 (266)
                      ..
T Consensus       273 ~~  274 (346)
T TIGR01659       273 EE  274 (346)
T ss_pred             Cc
Confidence            64

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).

>smart00360 RRM RNA recognition motif

Probab=99.26  E-value=2.3e-11  Score=84.36  Aligned_cols=67  Identities=30%  Similarity=0.447  Sum_probs=60.9

Q ss_pred             EeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEE
Q 024507            9 VKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSIT   75 (266)
Q Consensus         9 V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~   75 (266)
                      |+|||+.+++++|+++|+.||.|..+.+..+.   ...++|||+|.+++++..|+ .|+|..++|+.|.|.
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            58999999999999999999999999998874   24689999999999999999 699999999999873

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

Probab=99.24  E-value=3.5e-11  Score=102.18  Aligned_cols=74  Identities=24%  Similarity=0.405  Sum_probs=69.5

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ++|||+||++.+|+++|+++|..||.|.+|.+..+.   ..+++|||+|.+++.+..|+ .++|..|.|+.|.|....
T Consensus       116 ~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~  193 (306)
T COG0724         116 NTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ  193 (306)
T ss_pred             ceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence            799999999999999999999999999999999885   35799999999999999999 699999999999999854

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

Probab=99.24  E-value=3.8e-11  Score=115.64  Aligned_cols=78  Identities=23%  Similarity=0.354  Sum_probs=71.4

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAENY   80 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~~   80 (266)
                      ++|||+||++.+|+++|+++|+.||.|.+|.|..+..   ..++|||+|.+++.|..|+ .|||..|.|++|.|..+.+.
T Consensus       187 ~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~~  266 (457)
T TIGR01622       187 LKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQDS  266 (457)
T ss_pred             CEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccCC
Confidence            7899999999999999999999999999999998763   3689999999999999999 59999999999999998754


Q ss_pred             CC
Q 024507           81 VP   82 (266)
Q Consensus        81 ~~   82 (266)
                      ..
T Consensus       267 ~~  268 (457)
T TIGR01622       267 TY  268 (457)
T ss_pred             Cc
Confidence            43

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.

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

Probab=99.24  E-value=2.3e-11  Score=105.84  Aligned_cols=75  Identities=27%  Similarity=0.381  Sum_probs=69.1

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ..+.|||+||++.+++.||...|+.+|+|.+|-|-..  +.+||||+|+|+..|+.|+ .|||..|.|..|+|+....
T Consensus         9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn--PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G   84 (195)
T KOG0107|consen    9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN--PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTG   84 (195)
T ss_pred             CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec--CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecC
Confidence            3578999999999999999999999999999999874  5789999999999999999 6999999999999987643

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

Probab=99.23  E-value=3.9e-11  Score=121.52  Aligned_cols=75  Identities=16%  Similarity=0.260  Sum_probs=69.8

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ++|||+||++.+++++|+++|+.||+|++++|.++.   ..+|||||+|++.+++..|+ .|||..|+|+.|+|..+..
T Consensus       205 ~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~  283 (612)
T TIGR01645       205 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVT  283 (612)
T ss_pred             ceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCC
Confidence            689999999999999999999999999999999885   25789999999999999999 6999999999999987653

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.

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

Probab=99.21  E-value=6.1e-11  Score=117.78  Aligned_cols=76  Identities=20%  Similarity=0.329  Sum_probs=69.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+||++.+|+++|+++|+.||.|.+|.+..+.  ..+++|||+|.++++|..|+ .|||..|+|++|.|..+..
T Consensus       285 ~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~  363 (562)
T TIGR01628       285 GVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQR  363 (562)
T ss_pred             CCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccC
Confidence            4689999999999999999999999999999999885  35789999999999999999 6999999999999987653

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

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

Probab=99.19  E-value=6.5e-11  Score=119.36  Aligned_cols=73  Identities=29%  Similarity=0.426  Sum_probs=66.8

Q ss_pred             CCCccEEEEeCCCCcccHHHHHHHcccC--CceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            1 MQQTRTVQVKNVSDLAHEREIHEFFSFS--GDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         1 M~~~~TV~V~NLs~~~Te~dL~efFs~c--G~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      |+..++|||+||++.++|++|+++|+.|  |+|++|.+.+     ++|||+|++.++|+.|+ .|||..|+|+.|+|..+
T Consensus       230 ~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r-----gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~A  304 (578)
T TIGR01648       230 MAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR-----DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLA  304 (578)
T ss_pred             cccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec-----CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            3445789999999999999999999999  9999999873     49999999999999999 59999999999999977


Q ss_pred             C
Q 024507           78 E   78 (266)
Q Consensus        78 ~   78 (266)
                      .
T Consensus       305 k  305 (578)
T TIGR01648       305 K  305 (578)
T ss_pred             c
Confidence            4

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.

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

Probab=99.19  E-value=1.1e-10  Score=113.76  Aligned_cols=76  Identities=20%  Similarity=0.338  Sum_probs=69.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||.|..+.|+.+.   ...|+|||+|.+++++..|+ .|||..|.|+.|.|..+..
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            4789999999999999999999999999999999875   25789999999999999999 6999999999999988753

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

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

Probab=99.17  E-value=6.8e-11  Score=115.22  Aligned_cols=78  Identities=21%  Similarity=0.401  Sum_probs=67.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccC------------CceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCee
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFS------------GDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQI   71 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~c------------G~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~   71 (266)
                      .++|||+|||+.+|+++|++||+.|            +.|..+.+..+   .+||||+|.+++.|..||.|||..|.|++
T Consensus       175 ~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~---kg~afVeF~~~e~A~~Al~l~g~~~~g~~  251 (509)
T TIGR01642       175 ARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKE---KNFAFLEFRTVEEATFAMALDSIIYSNVF  251 (509)
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCC---CCEEEEEeCCHHHHhhhhcCCCeEeeCce
Confidence            5899999999999999999999864            45666666543   67999999999999999999999999999


Q ss_pred             EEEEeCCCCCCCC
Q 024507           72 VSITPAENYVPKP   84 (266)
Q Consensus        72 I~V~~a~~~~~~P   84 (266)
                      |.|....++..+|
T Consensus       252 l~v~r~~~~~~~~  264 (509)
T TIGR01642       252 LKIRRPHDYIPVP  264 (509)
T ss_pred             eEecCccccCCcc
Confidence            9998877776544

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

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

Probab=99.15  E-value=1.2e-10  Score=114.47  Aligned_cols=72  Identities=18%  Similarity=0.200  Sum_probs=66.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH---hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL---LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl---Lng~~l~g~~I~V~~a~   78 (266)
                      +++|||+|||+.++|++|+++|+.||+|.+|.|+.+   +++|||+|+++++|+.|+.   +|+..|.|++|.|..+.
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~---k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~   76 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG---KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYST   76 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC---CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecC
Confidence            479999999999999999999999999999999864   5799999999999999994   58999999999998764

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).

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

Probab=99.15  E-value=1.9e-10  Score=113.06  Aligned_cols=74  Identities=18%  Similarity=0.425  Sum_probs=68.0

Q ss_pred             ccEEEEeCCCC-cccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSD-LAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~-~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      +++|||+||++ .+|+++|+++|+.||.|.+|.++.+.  +++|||+|.++++|..|| .|||..|.|++|.|..+..
T Consensus       275 ~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~--~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~  350 (481)
T TIGR01649       275 GSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK--KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQ  350 (481)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC--CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccc
Confidence            46999999998 69999999999999999999998763  689999999999999999 5999999999999987643

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).

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

Probab=99.09  E-value=4e-10  Score=103.86  Aligned_cols=74  Identities=23%  Similarity=0.337  Sum_probs=68.2

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      +.+||||+||++-.||++||+.|+.+|.|..|++..+   .|+|||.|++.++|..|+ .+||++|.|+.|+...-..
T Consensus       163 ~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~---qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe  237 (321)
T KOG0148|consen  163 DNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD---QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKE  237 (321)
T ss_pred             CCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc---cceEEEEecchhhHHHHHHHhcCceeCceEEEEecccc
Confidence            4689999999999999999999999999999999987   569999999999999998 6999999999999876544

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

Probab=99.08  E-value=2.7e-10  Score=114.89  Aligned_cols=74  Identities=22%  Similarity=0.308  Sum_probs=66.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeec-CeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIV-DQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~-g~~I~V~~a   77 (266)
                      .++|||+|||++++|++|+++|+.||.|.+|+|++|.  .+++||||+|.++++|+.|| .|||..|. |+.|.|...
T Consensus        58 ~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S  135 (578)
T TIGR01648        58 GCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS  135 (578)
T ss_pred             CCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence            4799999999999999999999999999999999885  35789999999999999999 69999985 777766543

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

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

Probab=99.07  E-value=2.9e-10  Score=100.16  Aligned_cols=78  Identities=26%  Similarity=0.317  Sum_probs=72.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAENYV   81 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~~~   81 (266)
                      .++|||+|||+.+.|.+|.++|..+|.|..|+|....+..+||||+|+++..|+.|+. -||..++|..|+|+.....-
T Consensus         6 ~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr   84 (241)
T KOG0105|consen    6 SRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGR   84 (241)
T ss_pred             cceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCC
Confidence            5899999999999999999999999999999998877778999999999999999995 99999999999999876554

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

Probab=99.05  E-value=2.5e-10  Score=101.96  Aligned_cols=76  Identities=22%  Similarity=0.334  Sum_probs=70.7

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +..++.|-||...+|.++|+..|..||.|-+|.|..|.   ...|||||-|.+...|+.|| .|||.+|+|+.|.|..+.
T Consensus        12 gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar   91 (256)
T KOG4207|consen   12 GMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR   91 (256)
T ss_pred             cceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence            34789999999999999999999999999999999997   46799999999999999999 699999999999998764

>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]

Probab=99.03  E-value=4.6e-10  Score=101.45  Aligned_cols=74  Identities=20%  Similarity=0.250  Sum_probs=67.9

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      ++|||+||+|.++.++|++||..+|+|....++.|+   .++|++||||.|.+++..|+.=-+-.|+||.-.+..+.
T Consensus        13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~   89 (247)
T KOG0149|consen   13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLAS   89 (247)
T ss_pred             EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhh
Confidence            579999999999999999999999999999999997   35799999999999999999999999999987776653

>PF13893 RRM_5: RNA recognition motif

Probab=99.03  E-value=1.2e-09  Score=76.72  Aligned_cols=54  Identities=22%  Similarity=0.418  Sum_probs=48.7

Q ss_pred             HHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507           21 IHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus        21 L~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      |+++|+.||+|.+|.+..+.  .++|||+|.++++|+.|+ .|||..+.|++|+|..
T Consensus         1 L~~~f~~fG~V~~i~~~~~~--~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~   55 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK--RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSY   55 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS--TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC--CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            68999999999999998664  589999999999999999 5999999999999974

(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 ....

>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]

Probab=99.02  E-value=1.1e-09  Score=99.68  Aligned_cols=75  Identities=28%  Similarity=0.364  Sum_probs=69.9

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      |..||.|+|||.+++|.+|+++|..+|.|.+|.|.+|.+   .+|||||+|++.+.|..|+ .|||.-++.-.|+|+..
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws  266 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS  266 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence            567899999999999999999999999999999999984   4799999999999999999 59999999999999864

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

Probab=98.99  E-value=1.7e-09  Score=87.63  Aligned_cols=74  Identities=23%  Similarity=0.286  Sum_probs=69.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .+-+||.|||.++|.++..++|..+|.|..|+|-...+..|+|||.|++-.+|++|+ .|+|..+.++.+.|--+
T Consensus        18 nriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyy   92 (124)
T KOG0114|consen   18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYY   92 (124)
T ss_pred             heeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEec
Confidence            356999999999999999999999999999999988888999999999999999999 79999999999999754

>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]

Probab=98.96  E-value=2e-09  Score=100.23  Aligned_cols=72  Identities=19%  Similarity=0.315  Sum_probs=67.7

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      +|+||+-|+..++|.+|+..|+.+|+|+.|.|+.+.   .++|+|||+|+++-++..|- .-+|..|+|+.|.|.-
T Consensus       102 ~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDv  177 (335)
T KOG0113|consen  102 KTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDV  177 (335)
T ss_pred             ceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEe
Confidence            799999999999999999999999999999999996   36799999999999999998 6999999999999954

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

Probab=98.95  E-value=1.8e-09  Score=105.71  Aligned_cols=78  Identities=22%  Similarity=0.273  Sum_probs=72.1

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAENY   80 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~~   80 (266)
                      ++|||+|||+.++|++|.++|+..|.|.++++..|++   .+||+|++|.+++.++.|+ .|||.++.||+|+|..+...
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            7999999999999999999999999999999999873   5799999999999999999 59999999999999887654


Q ss_pred             CC
Q 024507           81 VP   82 (266)
Q Consensus        81 ~~   82 (266)
                      ..
T Consensus        99 ~~  100 (435)
T KOG0108|consen   99 KN  100 (435)
T ss_pred             ch
Confidence            43

>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.92  E-value=3.3e-10  Score=99.43  Aligned_cols=82  Identities=21%  Similarity=0.355  Sum_probs=74.5

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      |+.-|||+|||...||.||--.||.+|+|.+|.|++|.+   +.||||..|+|..+---|+ -|||..|.||.|+|....
T Consensus        34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~  113 (219)
T KOG0126|consen   34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS  113 (219)
T ss_pred             cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence            456799999999999999999999999999999999973   5799999999998876677 699999999999999999


Q ss_pred             CCCCCC
Q 024507           79 NYVPKP   84 (266)
Q Consensus        79 ~~~~~P   84 (266)
                      +|..|-
T Consensus       114 ~Yk~pk  119 (219)
T KOG0126|consen  114 NYKKPK  119 (219)
T ss_pred             cccCCc
Confidence            888774

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

Probab=98.91  E-value=1.7e-09  Score=94.81  Aligned_cols=76  Identities=18%  Similarity=0.323  Sum_probs=70.9

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ...||||+||++.++++-|.|+|-+||+|.+|.|+.|..   ..||||++|.+++.++=|+ .||+-.|-|++|+|..+.
T Consensus         8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas   87 (203)
T KOG0131|consen    8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS   87 (203)
T ss_pred             CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence            357999999999999999999999999999999999872   5799999999999999999 699999999999999876

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

Probab=98.90  E-value=4.1e-09  Score=101.32  Aligned_cols=76  Identities=20%  Similarity=0.310  Sum_probs=69.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC-CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~-~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      |.+.|||.||++.++.++|.++|+.+|+|.+|.+..+. +.+++ ||.|+++++|.+|+ +|||..+.|+.|.|.+...
T Consensus        75 d~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~  152 (369)
T KOG0123|consen   75 DPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFER  152 (369)
T ss_pred             CCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccc
Confidence            45669999999999999999999999999999999887 56677 99999999999999 7999999999999977654

>smart00361 RRM_1 RNA recognition motif

Probab=98.89  E-value=5.8e-09  Score=76.89  Aligned_cols=58  Identities=19%  Similarity=0.378  Sum_probs=50.3

Q ss_pred             HHHHHHHcc----cCCceeEEE-EEecC-----CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEE
Q 024507           18 EREIHEFFS----FSGDIERIE-ILREY-----GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSIT   75 (266)
Q Consensus        18 e~dL~efFs----~cG~I~~I~-l~~d~-----~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~   75 (266)
                      +++|+++|+    .+|.|.+|. +..+.     .++|++||+|+++++|..|+ .|||..++|+.|+++
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~   70 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE   70 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence            689999999    999999996 55443     34789999999999999999 699999999999863

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

Probab=98.89  E-value=2.2e-09  Score=90.53  Aligned_cols=73  Identities=27%  Similarity=0.366  Sum_probs=68.0

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .-|||+||-+.+||++|.+.|..+|+|+.|.|-.|+.   .+|+|.|+|+....|+.|+ .|||+.|.|++|.|..|
T Consensus        73 wIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~  149 (170)
T KOG0130|consen   73 WIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWC  149 (170)
T ss_pred             EEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEE
Confidence            4689999999999999999999999999999988763   3789999999999999999 69999999999999886

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

Probab=98.84  E-value=4.5e-09  Score=95.30  Aligned_cols=80  Identities=24%  Similarity=0.276  Sum_probs=73.0

Q ss_pred             CCCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            1 MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         1 M~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      |.+.+.|||+|+.+.+|.+++...|+.||.|..|.|+.+..   .++||||+|.+.+.++.+|.|||..|.|+.|.|++.
T Consensus        98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt~~  177 (231)
T KOG4209|consen   98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVTLK  177 (231)
T ss_pred             ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceeeee
Confidence            34678999999999999999999999999999999998873   478999999999999999999999999999999887


Q ss_pred             CCC
Q 024507           78 ENY   80 (266)
Q Consensus        78 ~~~   80 (266)
                      ..-
T Consensus       178 r~~  180 (231)
T KOG4209|consen  178 RTN  180 (231)
T ss_pred             eee
Confidence            543

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

Probab=98.82  E-value=6.6e-09  Score=101.01  Aligned_cols=74  Identities=23%  Similarity=0.395  Sum_probs=68.5

Q ss_pred             CCCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            1 MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         1 M~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      |+.-.-+||.||+.++||+.|++.|+.+|+|++|..++|     +|||.|.+.+++-.|+ .+||.+|+|..|.|+.+..
T Consensus       256 ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD-----YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP  330 (506)
T KOG0117|consen  256 MSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD-----YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKP  330 (506)
T ss_pred             hhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc-----eeEEeecchHHHHHHHHHhcCceecCceEEEEecCC
Confidence            555677999999999999999999999999999999977     9999999999999999 5999999999999998753

>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]

Probab=98.81  E-value=9e-09  Score=100.93  Aligned_cols=77  Identities=29%  Similarity=0.377  Sum_probs=69.8

Q ss_pred             CCCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC-CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            1 MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         1 M~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~-~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      |....-|.+.+|||+||++||++||+.|+ |+++.+.+.. .+++-|||+|+++++++.||.+|-..+..|.|.|-.+.
T Consensus         7 ~~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~   84 (510)
T KOG4211|consen    7 GSTAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAG   84 (510)
T ss_pred             CCcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccC
Confidence            34566799999999999999999999995 9999999885 56899999999999999999999999999999997764

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

Probab=98.77  E-value=7e-09  Score=99.14  Aligned_cols=75  Identities=23%  Similarity=0.278  Sum_probs=69.3

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      +.|||+.|++...|+.||.-|..+|.|++|.|.-|+   ..++||||+|+=|+++.-|| .+||..|+||.|+|-+..+
T Consensus       114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsN  192 (544)
T KOG0124|consen  114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSN  192 (544)
T ss_pred             HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCC
Confidence            689999999999999999999999999999998776   35799999999999999999 5999999999999986544

>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]

Probab=98.76  E-value=1.3e-08  Score=101.06  Aligned_cols=78  Identities=23%  Similarity=0.394  Sum_probs=71.7

Q ss_pred             CCCc-cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEE
Q 024507            1 MQQT-RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSIT   75 (266)
Q Consensus         1 M~~~-~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~   75 (266)
                      |++. .|+||++||++++.++|.+|||..|+|.++-++.+.+   .+||+||+|.=.+.++.|+ ++++..+.|+.|+|.
T Consensus         1 ~n~~g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~   80 (678)
T KOG0127|consen    1 ENKSGATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVD   80 (678)
T ss_pred             CCCCCceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccc
Confidence            4543 8999999999999999999999999999999999875   4799999999999999999 699999999999998


Q ss_pred             eCC
Q 024507           76 PAE   78 (266)
Q Consensus        76 ~a~   78 (266)
                      ++.
T Consensus        81 ~A~   83 (678)
T KOG0127|consen   81 PAK   83 (678)
T ss_pred             ccc
Confidence            874

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

Probab=98.73  E-value=2.6e-08  Score=97.01  Aligned_cols=76  Identities=20%  Similarity=0.303  Sum_probs=69.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcc-cCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFS-FSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs-~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .|.||++|||+.+.+.+|+++|. ..|+|++|+|+.|.  ..+++|.|+|++++.+++|+ .||...+.||+|.|....+
T Consensus        44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d  123 (608)
T KOG4212|consen   44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD  123 (608)
T ss_pred             cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence            36799999999999999999996 68999999999987  35789999999999999999 5999999999999987655

>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]

Probab=98.72  E-value=3.5e-08  Score=98.08  Aligned_cols=75  Identities=28%  Similarity=0.367  Sum_probs=67.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhc------C-CeecCeeEE
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLS------G-ATIVDQIVS   73 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLn------g-~~l~g~~I~   73 (266)
                      +.||||.|||+.+||++|.+.|+.+|+|.++.|+.++.   +.|+|||.|.++.++..+|..-      | -.|+||.|.
T Consensus       292 ~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~Lk  371 (678)
T KOG0127|consen  292 GKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRLLK  371 (678)
T ss_pred             cceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccEEe
Confidence            58999999999999999999999999999999998873   5799999999999999999643      3 568999999


Q ss_pred             EEeCC
Q 024507           74 ITPAE   78 (266)
Q Consensus        74 V~~a~   78 (266)
                      |+++-
T Consensus       372 v~~Av  376 (678)
T KOG0127|consen  372 VTLAV  376 (678)
T ss_pred             eeecc
Confidence            99874

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

Probab=98.71  E-value=1.2e-08  Score=92.04  Aligned_cols=75  Identities=25%  Similarity=0.418  Sum_probs=69.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .||+||++|...++|.-|..-|-.+|.|..|.|+.|.+   .++|+||+|+..+.|..|+ -+|+.+|-||.|+|..+.
T Consensus        10 KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~Ak   88 (298)
T KOG0111|consen   10 KRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAK   88 (298)
T ss_pred             ceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecC
Confidence            58999999999999999999999999999999998873   5799999999999999999 699999999999997653

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

Probab=98.70  E-value=4e-08  Score=95.65  Aligned_cols=74  Identities=20%  Similarity=0.263  Sum_probs=66.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeec-CeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIV-DQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~-g~~I~V~~a   77 (266)
                      ++-|||+.||.++.|++|.-||...|+|-.++|++|+   ..+|+|||+|.+.+.|+.|+ +||+.+|. |+.|.|+-.
T Consensus        83 G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~S  161 (506)
T KOG0117|consen   83 GCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVS  161 (506)
T ss_pred             CceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEe
Confidence            5789999999999999999999999999999999995   36899999999999999999 79999884 677776543

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=98.68  E-value=2e-08  Score=96.57  Aligned_cols=79  Identities=24%  Similarity=0.413  Sum_probs=71.3

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC------CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG------QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~------~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .-|+|.||+|++|.++++.+|.++|+|..+.|....+      ...+|||-|.|+..+..|.+|.++.+.|+.|.|.|+.
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~~   87 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPYG   87 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEecC
Confidence            4799999999999999999999999999999987532      3689999999999999999999999999999999977


Q ss_pred             CCCCC
Q 024507           79 NYVPK   83 (266)
Q Consensus        79 ~~~~~   83 (266)
                      +...|
T Consensus        88 ~~~~p   92 (479)
T KOG4676|consen   88 DEVIP   92 (479)
T ss_pred             CCCCc
Confidence            65544

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

Probab=98.62  E-value=1.5e-07  Score=86.95  Aligned_cols=74  Identities=20%  Similarity=0.351  Sum_probs=68.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      +.+|||=||+|++.|.-|+++|+.+|.|.+|.+++|-.   -+||+||+..+-++|..|+ .|||..|++|.|.|+-.
T Consensus       278 g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFK  355 (360)
T KOG0145|consen  278 GWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFK  355 (360)
T ss_pred             eeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEe
Confidence            57899999999999999999999999999999999973   4689999999999999998 59999999999999864

>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.53  E-value=2e-07  Score=88.40  Aligned_cols=70  Identities=29%  Similarity=0.348  Sum_probs=64.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH--HhcCCeecCeeEEEEe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL--LLSGATIVDQIVSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL--lLng~~l~g~~I~V~~   76 (266)
                      .+|+||+||-+.++|.+|+++|-.||+|.+|.+...   .+.|||+|.+..+++.|.  .+|...|+|+.|+|..
T Consensus       228 I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~---~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~W  299 (377)
T KOG0153|consen  228 IKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR---KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKW  299 (377)
T ss_pred             eeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc---cccceeeehhhHHHHHHHHhhcceeeecceEEEEEe
Confidence            479999999999999999999999999999999865   459999999999999987  5999999999999984

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

Probab=98.51  E-value=2.4e-07  Score=89.26  Aligned_cols=71  Identities=20%  Similarity=0.223  Sum_probs=65.2

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++||+   |.+||..|.++|+..|++.+|++++|-.+-|+|||.|.++..++.|| .||...|.|++|+|.+..
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~   73 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDATSLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQ   73 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccCCceeEEEeecCCccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhc
Confidence            368888   99999999999999999999999999844589999999999999999 699999999999997653

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

Probab=98.49  E-value=1.8e-07  Score=87.27  Aligned_cols=71  Identities=23%  Similarity=0.354  Sum_probs=66.3

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAENY   80 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~~   80 (266)
                      -.+||+|||..+++.+|+.+|..+|+|..++|+.+     ++||..++..+++-|+. |+|.+|+|..|.|+...+-
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN-----YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK   74 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN-----YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK   74 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeeeeecc-----cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence            47899999999999999999999999999999944     89999999999999996 9999999999999987654

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

Probab=98.48  E-value=4e-07  Score=84.07  Aligned_cols=74  Identities=22%  Similarity=0.397  Sum_probs=67.8

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--C-CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--G-QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~-~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +.+.|-=||.+.|+++||-+|+..|+|+++.|++|+  + +-|++||.|-+|++|+.|+ .|||-.|..+.|+|+-+.
T Consensus        42 TNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyAR  119 (360)
T KOG0145|consen   42 TNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYAR  119 (360)
T ss_pred             ceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEecc
Confidence            458888899999999999999999999999999997  3 4589999999999999999 699999999999998653

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

Probab=98.47  E-value=2.3e-07  Score=90.55  Aligned_cols=71  Identities=15%  Similarity=0.189  Sum_probs=63.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      .++|+|.|||.++|++-|++-|..||.|.+.+|.......  ..|.|.+|+.|+.|+ ++||..|+||.|.|+.
T Consensus       536 a~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~Gksk--GVVrF~s~edAEra~a~Mngs~l~Gr~I~V~y  607 (608)
T KOG4212|consen  536 ACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENGKSK--GVVRFFSPEDAERACALMNGSRLDGRNIKVTY  607 (608)
T ss_pred             ccEEEEecCCccccHHHHHHHHHhccceehhhhhccCCcc--ceEEecCHHHHHHHHHHhccCcccCceeeeee
Confidence            4789999999999999999999999999999995443333  399999999999999 7999999999999974

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

Probab=98.46  E-value=2.4e-07  Score=88.38  Aligned_cols=73  Identities=19%  Similarity=0.326  Sum_probs=67.6

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ..+||.-|.|-+|.++|.-.||.+|+|.++++++|..   .-++|||+|++.++.+.|. .+++..|+++.|+|.-.
T Consensus       240 NVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFS  316 (479)
T KOG0415|consen  240 NVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFS  316 (479)
T ss_pred             ceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehh
Confidence            5789999999999999999999999999999999973   4589999999999999997 79999999999999644

>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]

Probab=98.44  E-value=3.7e-07  Score=89.21  Aligned_cols=76  Identities=25%  Similarity=0.249  Sum_probs=67.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--C-CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--G-QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~-~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      ..+|||.|||+++++.+|+++|..+|.|+...|....  + ..+|+||+|++.++++.|++-+--.|+++.+.|.....
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 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRP  366 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEeccc
Confidence            4679999999999999999999999999999998643  2 23899999999999999999998889999999986543

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

Probab=98.44  E-value=2.8e-07  Score=91.46  Aligned_cols=77  Identities=19%  Similarity=0.317  Sum_probs=70.3

Q ss_pred             EEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCCCCC
Q 024507            7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAENYVP   82 (266)
Q Consensus         7 V~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~~~~   82 (266)
                      +||+||-++.+|++|+..|..+|+|+.|.+..|.   ..+||+||+|.+.+.+..|+ .|||-+|-|+.|+|....+-..
T Consensus       281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~  360 (549)
T KOG0147|consen  281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVD  360 (549)
T ss_pred             hhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeecc
Confidence            8999999999999999999999999999999985   35799999999999999997 6999999999999988766555


Q ss_pred             C
Q 024507           83 K   83 (266)
Q Consensus        83 ~   83 (266)
                      .
T Consensus       361 ~  361 (549)
T KOG0147|consen  361 T  361 (549)
T ss_pred             c
Confidence            4

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

Probab=98.42  E-value=5e-07  Score=91.95  Aligned_cols=72  Identities=24%  Similarity=0.348  Sum_probs=66.6

Q ss_pred             EEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC------CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG------QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         7 V~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~------~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +||+||++.+|.++|...|+..|.|.++.|...+.      +.||+||+|.+++.|..|+ .|+|+.|+|+.|.|..+.
T Consensus       518 lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~  596 (725)
T KOG0110|consen  518 LFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE  596 (725)
T ss_pred             hhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence            99999999999999999999999999999986653      3599999999999999999 699999999999998876

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

Probab=98.42  E-value=4.6e-07  Score=83.90  Aligned_cols=72  Identities=19%  Similarity=0.314  Sum_probs=66.9

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      -|+|+.|++.++-++||+-|..+|+|.+.++++|.   .++|++||.|-+.+.|+.|+ .+||.=|++|.|+-..+
T Consensus        64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWA  139 (321)
T KOG0148|consen   64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWA  139 (321)
T ss_pred             eEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecccc
Confidence            58999999999999999999999999999999997   35799999999999999999 69999999999997544

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

Probab=98.41  E-value=7.1e-07  Score=80.34  Aligned_cols=76  Identities=26%  Similarity=0.370  Sum_probs=70.2

Q ss_pred             ccEEEEeCCCCcccHHHHHH----HcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHE----FFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~e----fFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..|+||.||...+..++|+.    +||.+|+|..|....-..-+|-|||.|.+.+++..|+ .|+|-.+-|.+++|..+.
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            45999999999999999998    9999999999999877777899999999999999999 699999999999998775


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        89 s   89 (221)
T KOG4206|consen   89 S   89 (221)
T ss_pred             C
Confidence            4

>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]

Probab=98.40  E-value=2.7e-07  Score=87.11  Aligned_cols=77  Identities=18%  Similarity=0.262  Sum_probs=70.5

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      +.++++|++|+|.++++.|+++|+.+|+|..+.+.+|.   ..++|.||+|.+++.+..+|...-..|+|+.|.+.++-.
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~   84 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVS   84 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccC
Confidence            56899999999999999999999999999999999987   357899999999999999999999999999999887644

>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]

Probab=98.40  E-value=2.7e-07  Score=89.76  Aligned_cols=76  Identities=29%  Similarity=0.357  Sum_probs=66.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHH-HhcCCe-ecCe--eEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIAL-LLSGAT-IVDQ--IVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tAL-lLng~~-l~g~--~I~V~~a   77 (266)
                      .+.+||+-|+..+||.+|++.|+.+|.|++|.|.++..  .+|+|||+|...+-|..|+ .|||+. +.|.  +|.|.-+
T Consensus       124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFA  203 (510)
T KOG0144|consen  124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFA  203 (510)
T ss_pred             chhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEec
Confidence            57889999999999999999999999999999999873  5899999999999999999 599964 5554  7888765


Q ss_pred             CC
Q 024507           78 EN   79 (266)
Q Consensus        78 ~~   79 (266)
                      +.
T Consensus       204 Dt  205 (510)
T KOG0144|consen  204 DT  205 (510)
T ss_pred             cc
Confidence            43

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

Probab=98.38  E-value=8.9e-07  Score=84.13  Aligned_cols=74  Identities=20%  Similarity=0.311  Sum_probs=66.4

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeE--------EEEEecC-C-CCcEEEEEecChHHHHHHH-HhcCCeecCeeEE
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIER--------IEILREY-G-QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVS   73 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~--------I~l~~d~-~-~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~   73 (266)
                      ..|||+|||+.+|-+++.++|+.||-|.+        |.|.++. + .+|-|.+.|-..++++-|+ +||+..|.|+.|+
T Consensus       135 t~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~r  214 (382)
T KOG1548|consen  135 TSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKKLR  214 (382)
T ss_pred             ceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcEEE
Confidence            46999999999999999999999998864        7787776 3 4789999999999999999 7999999999999


Q ss_pred             EEeCC
Q 024507           74 ITPAE   78 (266)
Q Consensus        74 V~~a~   78 (266)
                      |..+.
T Consensus       215 VerAk  219 (382)
T KOG1548|consen  215 VERAK  219 (382)
T ss_pred             Eehhh
Confidence            99873

>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]

Probab=98.31  E-value=1.3e-06  Score=89.83  Aligned_cols=77  Identities=26%  Similarity=0.370  Sum_probs=70.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCCCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAENYVP   82 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~~~~   82 (266)
                      ++|+||++|+.+++|.||+..|..||+|++|.|...   .++|||+...-++|+.|| .|++..+.++.|+|..+-+.-.
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 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP---RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGP  497 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC---CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCc
Confidence            489999999999999999999999999999999854   679999999999999999 6999999999999988766544


Q ss_pred             C
Q 024507           83 K   83 (266)
Q Consensus        83 ~   83 (266)
                      .
T Consensus       498 k  498 (894)
T KOG0132|consen  498 K  498 (894)
T ss_pred             c
Confidence            3

>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]

Probab=98.29  E-value=2.7e-07  Score=83.29  Aligned_cols=81  Identities=21%  Similarity=0.248  Sum_probs=71.5

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAENY   80 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~~   80 (266)
                      +.+|++|.|+...++|+-|.|+|-..|.|..|.|..+.. ..+||||.|+++-++.-|+ |+||-.|-+++|.|++-.+.
T Consensus         8 ~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~   87 (267)
T KOG4454|consen    8 MDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGN   87 (267)
T ss_pred             hhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhcccccCC
Confidence            458999999999999999999999999999999987763 3469999999999999999 89999999999999876554


Q ss_pred             CCC
Q 024507           81 VPK   83 (266)
Q Consensus        81 ~~~   83 (266)
                      .-.
T Consensus        88 sha   90 (267)
T KOG4454|consen   88 SHA   90 (267)
T ss_pred             Ccc
Confidence            333

>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]

Probab=98.29  E-value=9.8e-07  Score=83.34  Aligned_cols=76  Identities=17%  Similarity=0.264  Sum_probs=70.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      .+.|||++||+.++|++++++|..+|.|..+.+..|..   ..+|+||+|.++++++.++...-+.|.|+.+.|..+..
T Consensus        97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA~p  175 (311)
T KOG4205|consen   97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRAIP  175 (311)
T ss_pred             eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecccceeeecCceeeEeeccc
Confidence            35899999999999999999999999999999998873   57899999999999999999999999999999988753

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

Probab=98.25  E-value=9.1e-07  Score=82.63  Aligned_cols=70  Identities=20%  Similarity=0.311  Sum_probs=64.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..+++|+||++.++..+||+.|..+|.+..++|..+     ++||.|.-.+.+..|+ -|||+++.|++++|....
T Consensus        78 stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd-----y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~st  148 (346)
T KOG0109|consen   78 STKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD-----YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLST  148 (346)
T ss_pred             ccccccCCCCccccCHHHhhhhcccCCceeeeeecc-----eeEEEEeeccchHHHHhcccccccccceeeeeeec
Confidence            357999999999999999999999999999999855     9999999999999999 599999999999997653

>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]

Probab=98.21  E-value=2.5e-06  Score=83.14  Aligned_cols=74  Identities=20%  Similarity=0.346  Sum_probs=64.3

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH--HhcCCeecCe--eEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL--LLSGATIVDQ--IVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL--lLng~~l~g~--~I~V~~a   77 (266)
                      -.+||+-||..++|.|||++|..+|.|..|.|++|+   .+.++|||+|.+.+++..|+  +-|-.+|-|-  +|.|.++
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            468999999999999999999999999999999997   35799999999999999998  4555677665  6777766


Q ss_pred             C
Q 024507           78 E   78 (266)
Q Consensus        78 ~   78 (266)
                      +
T Consensus       115 d  115 (510)
T KOG0144|consen  115 D  115 (510)
T ss_pred             c
Confidence            4

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

Probab=98.19  E-value=5.3e-07  Score=89.58  Aligned_cols=75  Identities=25%  Similarity=0.461  Sum_probs=69.3

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      +.+||++--|+-..++.+|.+||+..|+|..|+|+.|..   .++.|||+|-|.+++.-|+.|+|..+.|.+|.|.+.
T Consensus       178 d~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~vq~s  255 (549)
T KOG0147|consen  178 DQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIVQLS  255 (549)
T ss_pred             hHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhhhcCCcccCceeEeccc
Confidence            457899999999999999999999999999999999973   478999999999999999999999999999999653

>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]

Probab=98.16  E-value=5.4e-06  Score=75.94  Aligned_cols=75  Identities=20%  Similarity=0.276  Sum_probs=67.7

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .+|+|+||+..++++||+|+|..+|.++.+-+-.++  .+.|+|-|.|...+.|..|+ .|||..|+|+++.+.....
T Consensus        84 ~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~  161 (243)
T KOG0533|consen   84 TKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISS  161 (243)
T ss_pred             ceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecC
Confidence            579999999999999999999999999999998876  35799999999999999999 6999999999988876543

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

Probab=98.08  E-value=4.5e-06  Score=73.56  Aligned_cols=74  Identities=18%  Similarity=0.288  Sum_probs=63.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeE-EEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIER-IEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~-I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      +..+||+||.|.++|.-|.+.||.+|.|.+ =++.+++   .+.+++||.|.+.++...|+ .+||..+..++|+|+-+
T Consensus        96 ganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya  174 (203)
T KOG0131|consen   96 GANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYA  174 (203)
T ss_pred             cccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEE
Confidence            357899999999999999999999998765 3445544   35679999999999999999 69999999999999865

>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]

Probab=98.06  E-value=7.7e-06  Score=82.20  Aligned_cols=77  Identities=18%  Similarity=0.310  Sum_probs=70.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ++.++|++|+..+.-.+|+.+||.+|+|.-..++.+.   +..+|+|||+.....|..++ .|+-++|.|+.|.|..+.+
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKN  484 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKN  484 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeeccc
Confidence            5789999999999999999999999999999998764   56799999999999999999 6999999999999998866


Q ss_pred             C
Q 024507           80 Y   80 (266)
Q Consensus        80 ~   80 (266)
                      -
T Consensus       485 E  485 (940)
T KOG4661|consen  485 E  485 (940)
T ss_pred             C
Confidence            3

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

Probab=97.97  E-value=6.4e-06  Score=74.25  Aligned_cols=69  Identities=23%  Similarity=0.377  Sum_probs=63.2

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..|||++|++.+.+++|.+||..+|+|.++.|.     .+|+||+|+|+.+|+-|+ -|||..|.|-.+.|..+.
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk-----~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r   71 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK-----NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHAR   71 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccceee-----cccceeccCchhhhhcccchhcCceecceeeeeeccc
Confidence            469999999999999999999999999999996     678999999999999999 599999999997776654

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

Probab=97.97  E-value=6.7e-06  Score=83.90  Aligned_cols=75  Identities=19%  Similarity=0.359  Sum_probs=67.9

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      +.|+|.|||+.++-++|+++|+.+|.|.+|+|+...+   ..|||||+|-.+..+..|+ .|.++.|-||.|.+..+.+
T Consensus       614 tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~  692 (725)
T KOG0110|consen  614 TKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKS  692 (725)
T ss_pred             ceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhcc
Confidence            5799999999999999999999999999999997732   4799999999999999999 6889999999999887654

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

Probab=97.97  E-value=1.6e-05  Score=76.51  Aligned_cols=74  Identities=16%  Similarity=0.261  Sum_probs=67.9

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..|||..+.|+.+|+||+..|.-+|+|.+|.|-+++   +.+||+|++|.+.++-..|+ -+|=-.|+|+.|+|-.+-
T Consensus       211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~v  288 (544)
T KOG0124|consen  211 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV  288 (544)
T ss_pred             heEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccccc
Confidence            479999999999999999999999999999999886   46899999999999999999 599999999999997653

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

Probab=97.90  E-value=2.5e-05  Score=55.40  Aligned_cols=52  Identities=25%  Similarity=0.304  Sum_probs=44.3

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL   60 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL   60 (266)
                      +.|-|++.++...+ +|..+|..||+|.++.+.   ......||.|++..+++.||
T Consensus         2 ~wI~V~Gf~~~~~~-~vl~~F~~fGeI~~~~~~---~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAE-EVLEHFASFGEIVDIYVP---ESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHH-HHHHHHHhcCCEEEEEcC---CCCcEEEEEECCHHHHHhhC
Confidence            67999999988774 556688899999999987   23669999999999999986

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

Probab=97.86  E-value=3.4e-05  Score=62.01  Aligned_cols=68  Identities=24%  Similarity=0.376  Sum_probs=42.2

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCC-----eecCeeEEEE
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGA-----TIVDQIVSIT   75 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~-----~l~g~~I~V~   75 (266)
                      .-|++.|++..++-++|++.|+.+|+|.+|.+...   ...|||-|.++++|+.|+. +...     .|.+..++++
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G---~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~   75 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG---DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE   75 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT----SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC---CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence            56899999999999999999999999999999854   4589999999999999883 4333     4455554444

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

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

Probab=97.85  E-value=3.9e-05  Score=68.61  Aligned_cols=71  Identities=21%  Similarity=0.354  Sum_probs=62.5

Q ss_pred             EEEEeCCCCcccHHHHHHHcccC-CceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFS-GDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~c-G~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      -++|..|+..+-|.+|..||..+ |.+..++|.++.   ++++||||+|++++-|+-|- .|||..|.++.|.+.-
T Consensus        51 ~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~v  126 (214)
T KOG4208|consen   51 VVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHV  126 (214)
T ss_pred             ceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEE
Confidence            47899999999999999998765 899999997775   36799999999999999887 6999999999888753

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

Probab=97.85  E-value=1.1e-05  Score=80.60  Aligned_cols=68  Identities=24%  Similarity=0.310  Sum_probs=62.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEE
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVS   73 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~   73 (266)
                      .+++.|.||++.+++++|++.|+-+|+|..|++.+.  ..+..||+|-|-..|++|| .||+..|.|+.|.
T Consensus        75 ~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~--~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   75 QGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN--KRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             cceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc--cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            479999999999999999999999999999777654  4689999999999999999 6999999999988

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=97.78  E-value=1.7e-05  Score=75.55  Aligned_cols=76  Identities=25%  Similarity=0.380  Sum_probs=66.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeE--------EEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCee
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIER--------IEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQI   71 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~--------I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~   71 (266)
                      .-||||.+|+.++++++|-+||..||.|+.        |.|..+.+   .++-|.|+|+|+.+++.|+ .+++..+.++.
T Consensus        66 ~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~  145 (351)
T KOG1995|consen   66 NETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNT  145 (351)
T ss_pred             cccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCC
Confidence            468999999999999999999999999964        55555542   5789999999999999998 59999999999


Q ss_pred             EEEEeCCC
Q 024507           72 VSITPAEN   79 (266)
Q Consensus        72 I~V~~a~~   79 (266)
                      |+|..+..
T Consensus       146 ikvs~a~~  153 (351)
T KOG1995|consen  146 IKVSLAER  153 (351)
T ss_pred             chhhhhhh
Confidence            99987754

>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]

Probab=97.76  E-value=2.9e-05  Score=72.18  Aligned_cols=74  Identities=14%  Similarity=0.212  Sum_probs=68.7

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      +++.+||-.||....+.||-+.|-.+|.|.+-++..|+   .+++|+||.|.++.++.+|+ .+||-.|+=++|+|..
T Consensus       284 eGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQL  361 (371)
T KOG0146|consen  284 EGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQL  361 (371)
T ss_pred             CcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhh
Confidence            57899999999999999999999999999999999887   35789999999999999999 6999999999998865

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]

Probab=97.76  E-value=0.00011  Score=66.92  Aligned_cols=76  Identities=22%  Similarity=0.216  Sum_probs=61.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--C--CCcEEEEEecChHHHHHHH-HhcCCeec---CeeEEEE
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--G--QSKTAFVTFKDAKALEIAL-LLSGATIV---DQIVSIT   75 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~--~~~~AyVtF~~~~aa~tAL-lLng~~l~---g~~I~V~   75 (266)
                      -||+||++||.++..++|..+|..|---+...|....  +  .+.+|||+|.+.+.|..|+ .|||..++   ++.|+|+
T Consensus        34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiE  113 (284)
T KOG1457|consen   34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIE  113 (284)
T ss_pred             cceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEee
Confidence            4899999999999999999999877545555554332  2  3579999999999999999 69999997   5678887


Q ss_pred             eCCC
Q 024507           76 PAEN   79 (266)
Q Consensus        76 ~a~~   79 (266)
                      .+..
T Consensus       114 lAKS  117 (284)
T KOG1457|consen  114 LAKS  117 (284)
T ss_pred             ehhc
Confidence            7653

>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]

Probab=97.76  E-value=4.9e-05  Score=75.12  Aligned_cols=73  Identities=22%  Similarity=0.266  Sum_probs=61.6

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeE-EEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIER-IEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~-I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      -.|...+||+.||++||.+||+-.=-+.. |-|+.+.  ..++-|||.|++++.++.||..+...|+-|-|.|-++
T Consensus       104 ~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~S  179 (510)
T KOG4211|consen  104 GVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRS  179 (510)
T ss_pred             ceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehh
Confidence            46899999999999999999997633333 4555555  3578999999999999999999999999999999665

>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=97.69  E-value=0.00023  Score=57.05  Aligned_cols=73  Identities=19%  Similarity=0.233  Sum_probs=52.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEE-EEec---------CCCCcEEEEEecChHHHHHHHHhcCCeecCeeEE
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIE-ILRE---------YGQSKTAFVTFKDAKALEIALLLSGATIVDQIVS   73 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~-l~~d---------~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~   73 (266)
                      .+.|.|-+.|+.. -..|-++|+.||+|.+.. +.++         ......-.|+|.++.+|..||..||..|.|.-+-
T Consensus         6 ~~wVtVFGfp~~~-~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mv   84 (100)
T PF05172_consen    6 ETWVTVFGFPPSA-SNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLMV   84 (100)
T ss_dssp             CCEEEEE---GGG-HHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEEE
T ss_pred             CeEEEEEccCHHH-HHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEEE
Confidence            4679999999985 567888899999997764 1111         1235689999999999999999999999998655


Q ss_pred             -EEeC
Q 024507           74 -ITPA   77 (266)
Q Consensus        74 -V~~a   77 (266)
                       |.++
T Consensus        85 GV~~~   89 (100)
T PF05172_consen   85 GVKPC   89 (100)
T ss_dssp             EEEE-
T ss_pred             EEEEc
Confidence             4443

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.

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

Probab=97.61  E-value=0.00027  Score=55.43  Aligned_cols=66  Identities=17%  Similarity=0.252  Sum_probs=46.7

Q ss_pred             cEEEEeCCCCcccHHHH----HHHcccCC-ceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREI----HEFFSFSG-DIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL----~efFs~cG-~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ..++|.|||.+.+...|    +.++..|| +|.+|.       .+.|+|.|.+++.|..|+ .|+|...-|+.|.|...
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~-------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~   74 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS-------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS   74 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE---------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe-------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence            46899999998877665    56777897 676662       579999999999999999 59999999999999864

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

>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]

Probab=97.57  E-value=7.7e-05  Score=69.47  Aligned_cols=64  Identities=25%  Similarity=0.397  Sum_probs=57.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGAT   66 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~   66 (266)
                      +.|.+||+=|...-+|+|++.+|+.+|.|+++.+.+..  ..+|+|||.|.+.-++..|+ .|+|..
T Consensus        18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSq   84 (371)
T KOG0146|consen   18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQ   84 (371)
T ss_pred             cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccc
Confidence            35789999999999999999999999999999999865  36799999999999999999 588854

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

Probab=97.34  E-value=0.00014  Score=65.62  Aligned_cols=65  Identities=22%  Similarity=0.379  Sum_probs=59.6

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEE
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSI   74 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V   74 (266)
                      +.+.|.|++..+.+.+|.++|++.|.+....+     ..++++|.|+..+++..|+ +|+|..|.++.|++
T Consensus       100 ~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~-----~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~  165 (216)
T KOG0106|consen  100 FRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA-----RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV  165 (216)
T ss_pred             ceeeeccchhhhhHHHHhhhhcccCCCchhhh-----hccccceeehhhhhhhhcchhccchhhcCceeee
Confidence            67899999999999999999999999966655     2569999999999999999 79999999999999

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=97.19  E-value=0.00021  Score=66.82  Aligned_cols=72  Identities=18%  Similarity=0.248  Sum_probs=62.3

Q ss_pred             cEEE-EeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEe
Q 024507            5 RTVQ-VKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITP   76 (266)
Q Consensus         5 ~TV~-V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~   76 (266)
                      .+++ |+|++..+++++|+++|.+||.|..+++..++.   ..+++||.|.+......++.-....+.++++.+..
T Consensus       185 ~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  260 (285)
T KOG4210|consen  185 DTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLEE  260 (285)
T ss_pred             ccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhcccCcccCccccccc
Confidence            4677 999999999999999999999999999998874   46899999998887777775567888888888865

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]

Probab=97.09  E-value=0.00048  Score=62.84  Aligned_cols=62  Identities=21%  Similarity=0.310  Sum_probs=50.1

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCee
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATI   67 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l   67 (266)
                      .|+||-||+++|||++|+.+|+.+---..++|... +....||++|++.+-+..|+ .|.|-.|
T Consensus       211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~-~g~~vaf~~~~~~~~at~am~~lqg~~~  273 (284)
T KOG1457|consen  211 STLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR-GGMPVAFADFEEIEQATDAMNHLQGNLL  273 (284)
T ss_pred             hhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC-CCcceEeecHHHHHHHHHHHHHhhccee
Confidence            48999999999999999999996644555555433 44789999999999998888 6887665

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

Probab=97.02  E-value=0.0049  Score=49.20  Aligned_cols=64  Identities=17%  Similarity=0.282  Sum_probs=55.3

Q ss_pred             cEEEEeCCCCcccHHHHHHHcc--cCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeec
Q 024507            5 RTVQVKNVSDLAHEREIHEFFS--FSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIV   68 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs--~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~   68 (266)
                      +||-+.|||...|.++|.+.+.  +.|...-+-|+.|-.   ..|+|||.|.+++.+..-. .++|..+.
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~   71 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWP   71 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccc
Confidence            6899999999999999998885  458899999988853   4699999999999999866 69998875

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

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=96.96  E-value=0.00034  Score=64.59  Aligned_cols=66  Identities=20%  Similarity=0.276  Sum_probs=56.8

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCC---------------CcEEEEEecChHHHHH-HHHhcCCeecC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQ---------------SKTAFVTFKDAKALEI-ALLLSGATIVD   69 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~---------------~~~AyVtF~~~~aa~t-ALlLng~~l~g   69 (266)
                      -||++||||......||++|+++|.|-+|-|.++...               ..-+.|+|.+..-|+. |.+|||..|+|
T Consensus        76 VvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Igg  155 (278)
T KOG3152|consen   76 VVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIGG  155 (278)
T ss_pred             EEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccCC
Confidence            5999999999999999999999999999999986521               1247799999888877 55899999999


Q ss_pred             ee
Q 024507           70 QI   71 (266)
Q Consensus        70 ~~   71 (266)
                      +.
T Consensus       156 kk  157 (278)
T KOG3152|consen  156 KK  157 (278)
T ss_pred             CC
Confidence            85

>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]

Probab=96.96  E-value=0.0034  Score=61.42  Aligned_cols=72  Identities=19%  Similarity=0.413  Sum_probs=65.2

Q ss_pred             cEEEEeCCCC-cccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSD-LAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~-~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..+-|+||.+ .+|++-|..+|+-+|+|.+|.|...+  +--|.|.+.|+.-|+-|+ .|+|..|-|+.|+|+...
T Consensus       298 ~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk--kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK  371 (492)
T KOG1190|consen  298 VVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK--KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK  371 (492)
T ss_pred             eEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC--CcceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence            5788999986 78999999999999999999999875  357999999999999999 699999999999998764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.95  E-value=0.0015  Score=62.60  Aligned_cols=72  Identities=17%  Similarity=0.360  Sum_probs=59.0

Q ss_pred             cEEEEeCCCCcccHHHH------HHHcccCCceeEEEEEecC---C-CCcE--EEEEecChHHHHHHH-HhcCCeecCee
Q 024507            5 RTVQVKNVSDLAHEREI------HEFFSFSGDIERIEILREY---G-QSKT--AFVTFKDAKALEIAL-LLSGATIVDQI   71 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL------~efFs~cG~I~~I~l~~d~---~-~~~~--AyVtF~~~~aa~tAL-lLng~~l~g~~   71 (266)
                      .-|||-+|+|.+-.+++      .+||..+|+|..|-+-+..   + ..+-  .||+|...++|.+++ ..+|..++||.
T Consensus       115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~  194 (480)
T COG5175         115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRV  194 (480)
T ss_pred             ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCce
Confidence            34899999999877772      4999999999999886543   1 1232  499999999999999 69999999999


Q ss_pred             EEEEe
Q 024507           72 VSITP   76 (266)
Q Consensus        72 I~V~~   76 (266)
                      |+-+-
T Consensus       195 lkatY  199 (480)
T COG5175         195 LKATY  199 (480)
T ss_pred             Eeeec
Confidence            98753

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=96.94  E-value=0.002  Score=66.52  Aligned_cols=74  Identities=20%  Similarity=0.270  Sum_probs=63.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---C---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---G---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      .+.+||+||+|+++|+.|..-|..+|+|-+|+|.--+   +   ..-++||-|-+-..++.|| .|+|..+.+..+++-.
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            4679999999999999999999999999999997432   1   3468999999999999999 5999999888877754


Q ss_pred             C
Q 024507           77 A   77 (266)
Q Consensus        77 a   77 (266)
                      .
T Consensus       254 g  254 (877)
T KOG0151|consen  254 G  254 (877)
T ss_pred             c
Confidence            4

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

Probab=96.71  E-value=0.0065  Score=51.92  Aligned_cols=69  Identities=25%  Similarity=0.331  Sum_probs=53.0

Q ss_pred             cEEEEeCCCC------cccH---HHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEE
Q 024507            5 RTVQVKNVSD------LAHE---REIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSIT   75 (266)
Q Consensus         5 ~TV~V~NLs~------~~Te---~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~   75 (266)
                      .||.|+=.++      ...+   .+|.+.|+.+|++.=|++..+     .-.|||.+-++|-+||.|||.++.|+.|+|+
T Consensus        28 aTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~-----~mwVTF~dg~sALaals~dg~~v~g~~l~i~  102 (146)
T PF08952_consen   28 ATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD-----TMWVTFRDGQSALAALSLDGIQVNGRTLKIR  102 (146)
T ss_dssp             -EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT-----CEEEEESSCHHHHHHHHGCCSEETTEEEEEE
T ss_pred             ceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC-----eEEEEECccHHHHHHHccCCcEECCEEEEEE
Confidence            4777776662      2221   367788999999998888743     6899999999999999999999999999998


Q ss_pred             eCC
Q 024507           76 PAE   78 (266)
Q Consensus        76 ~a~   78 (266)
                      ...
T Consensus       103 LKt  105 (146)
T PF08952_consen  103 LKT  105 (146)
T ss_dssp             E--
T ss_pred             eCC
Confidence            753

; PDB: 1UFW_A 2DNR_A.

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=96.56  E-value=0.0066  Score=62.78  Aligned_cols=71  Identities=24%  Similarity=0.263  Sum_probs=61.4

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCce-eEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEE
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDI-ERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSIT   75 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I-~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~   75 (266)
                      +.|.+.|+|++++-+||.+||+.+-.+ .+|.+...+  ..+|-|-|.|++++.|..|. -|++..|..|.|.+.
T Consensus       868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~  942 (944)
T KOG4307|consen  868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLR  942 (944)
T ss_pred             eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEE
Confidence            468899999999999999999988654 467777655  35899999999999999998 499999999998875

>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]

Probab=96.27  E-value=0.0036  Score=61.48  Aligned_cols=63  Identities=21%  Similarity=0.270  Sum_probs=53.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---C-------------CCcEEEEEecChHHHHHHHHhcCCe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---G-------------QSKTAFVTFKDAKALEIALLLSGAT   66 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~-------------~~~~AyVtF~~~~aa~tALlLng~~   66 (266)
                      .+||.+-|||.+-.-+.|.++|+.||.|++|+|+.-+   +             ..-.|+|+|+.-++|.+|..|++..
T Consensus       231 srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e  309 (484)
T KOG1855|consen  231 SRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNPE  309 (484)
T ss_pred             cceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchh
Confidence            4899999999999999999999999999999998651   1             1237999999999999999766543

>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]

Probab=96.22  E-value=0.0044  Score=62.13  Aligned_cols=75  Identities=16%  Similarity=0.278  Sum_probs=68.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ...++|+||+...++.+++|...-+|.+...++..+..   .+++||-+|.++.--..|+ -|||..++|..|.|..+-
T Consensus       289 ~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~  367 (500)
T KOG0120|consen  289 PNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAI  367 (500)
T ss_pred             cchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhh
Confidence            46799999999999999999999999999999998863   5799999999999999999 599999999999998763

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

Probab=96.04  E-value=0.026  Score=51.18  Aligned_cols=72  Identities=21%  Similarity=0.304  Sum_probs=60.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeec-CeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIV-DQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~-g~~I~V~~a   77 (266)
                      ..+.++.|||..++.+.+..+|..|.--+.|+++..  .++.|||+|.+...+..|. .|.|..|- ...+.|+.+
T Consensus       146 n~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~--~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a  219 (221)
T KOG4206|consen  146 NNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPP--RSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFA  219 (221)
T ss_pred             ceEEEEecCCcchhHHHHHHHHhhCcccceeEeccC--CCceeEEecchhhhhHHHhhhhccceeccCceEEeccc
Confidence            468999999999999999999998887899999864  3679999999988888887 58888876 667777643

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=95.72  E-value=0.027  Score=56.40  Aligned_cols=74  Identities=23%  Similarity=0.288  Sum_probs=53.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC------CCc---EEEEEecChHHHHHHH---HhcC-------
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG------QSK---TAFVTFKDAKALEIAL---LLSG-------   64 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~------~~~---~AyVtF~~~~aa~tAL---lLng-------   64 (266)
                      .+.|||++||+..+|+.|..+|..||.+ .|+-....+      +.|   ++|..|+++.++..-|   ..+.       
T Consensus       259 S~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~~~~~~yf~v  337 (520)
T KOG0129|consen  259 SRKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEGEGNYYFKV  337 (520)
T ss_pred             ccceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhhcccceEEEE
Confidence            4689999999999999999999999984 455553221      245   9999999998887644   2221       


Q ss_pred             --CeecCeeEEEEeCC
Q 024507           65 --ATIVDQIVSITPAE   78 (266)
Q Consensus        65 --~~l~g~~I~V~~a~   78 (266)
                        .++.++.|.|.||-
T Consensus       338 ss~~~k~k~VQIrPW~  353 (520)
T KOG0129|consen  338 SSPTIKDKEVQIRPWV  353 (520)
T ss_pred             ecCcccccceeEEeeE
Confidence              23455556666663

>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]

Probab=95.71  E-value=0.022  Score=55.89  Aligned_cols=70  Identities=14%  Similarity=0.245  Sum_probs=57.7

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCce-eEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCe-eEEEEe
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDI-ERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQ-IVSITP   76 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I-~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~-~I~V~~   76 (266)
                      .|++.+|||++++|++|++.|..-|-. +-.....  +.++.|++.+++.+.+-.|| .+.+..+++. .++|+-
T Consensus       415 atlHlsnip~svsee~lk~~f~~~g~~vkafkff~--kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSF  487 (492)
T KOG1190|consen  415 ATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQ--KDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSF  487 (492)
T ss_pred             hheeeccCCcccchhHHHHhhhcCCceEEeeeecC--CCcceeecccCChhHhhhhccccccccCCCCceEEEEe
Confidence            589999999999999999999887754 4444432  23689999999999999998 6999999887 788864

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

Probab=95.64  E-value=0.069  Score=51.45  Aligned_cols=76  Identities=13%  Similarity=0.228  Sum_probs=61.3

Q ss_pred             CccEEEEeCCCC----ccc-------HHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCe
Q 024507            3 QTRTVQVKNVSD----LAH-------EREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQ   70 (266)
Q Consensus         3 ~~~TV~V~NLs~----~~T-------e~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~   70 (266)
                      ..+||.+.|+=.    ..+       +++|++==+.||.|.+|.+... .+-|.+.|.|.+++.|..++ .|+|..++||
T Consensus       264 ~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~-hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgR  342 (382)
T KOG1548|consen  264 ADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDR-HPDGVVTVSFRNNEEADQCIQTMDGRWFDGR  342 (382)
T ss_pred             CCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEecc-CCCceeEEEeCChHHHHHHHHHhcCeeecce
Confidence            468999999843    334       3445555678999999988633 45789999999999999999 7999999999


Q ss_pred             eEEEEeCCC
Q 024507           71 IVSITPAEN   79 (266)
Q Consensus        71 ~I~V~~a~~   79 (266)
                      .|+-..+.+
T Consensus       343 ql~A~i~DG  351 (382)
T KOG1548|consen  343 QLTASIWDG  351 (382)
T ss_pred             EEEEEEeCC
Confidence            999888755

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=95.51  E-value=0.017  Score=56.45  Aligned_cols=71  Identities=20%  Similarity=0.245  Sum_probs=57.9

Q ss_pred             EEEEeCCCCcccHHHHHHHcc-cC---CceeEEEEEec--CCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEe
Q 024507            6 TVQVKNVSDLAHEREIHEFFS-FS---GDIERIEILRE--YGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITP   76 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs-~c---G~I~~I~l~~d--~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~   76 (266)
                      -|...+||+++++.|+.+||. .|   |..+.|-++..  +..+|-|||.|..++.++.||..+...|+-|.|.+-+
T Consensus       163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFR  239 (508)
T KOG1365|consen  163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFR  239 (508)
T ss_pred             EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            366779999999999999996 23   34566666654  3468999999999999999999999999988887643

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=95.50  E-value=0.0015  Score=68.43  Aligned_cols=71  Identities=25%  Similarity=0.342  Sum_probs=56.7

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEE--ecC-CCCcEEEEEecChHHHHHHHHhcCCeecCe-eEEEE
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REY-GQSKTAFVTFKDAKALEIALLLSGATIVDQ-IVSIT   75 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~--~d~-~~~~~AyVtF~~~~aa~tALlLng~~l~g~-~I~V~   75 (266)
                      .++||+||++.+.+.+|+++|++.|.|+.+++.  .+. ..+|.||+.|.++..+..|+.++...+-|+ .+.|.
T Consensus       668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~gK~~v~i~  742 (881)
T KOG0128|consen  668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFGKISVAIS  742 (881)
T ss_pred             HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhhhhhhhee
Confidence            478999999999999999999999988887775  222 357999999999999999997665555554 44443

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=95.39  E-value=0.033  Score=55.80  Aligned_cols=74  Identities=23%  Similarity=0.222  Sum_probs=63.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcc-cCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-----HhcCCeecCeeEEE
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFS-FSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-----LLSGATIVDQIVSI   74 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs-~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-----lLng~~l~g~~I~V   74 (266)
                      .+||||++||--.+-++|..+|. .+|.|..+-|-.|++   +.|-+-|+|.+.++.-+|+     .|+...|+- .|.|
T Consensus       370 rrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsarFvql~h~d~~K-RVEI  448 (520)
T KOG0129|consen  370 RRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISARFVQLDHTDIDK-RVEI  448 (520)
T ss_pred             cceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhhheEEEeccccce-eeee
Confidence            47999999999999999999998 689999999988853   5799999999999988887     377777765 7888


Q ss_pred             EeCC
Q 024507           75 TPAE   78 (266)
Q Consensus        75 ~~a~   78 (266)
                      .|+-
T Consensus       449 kPYv  452 (520)
T KOG0129|consen  449 KPYV  452 (520)
T ss_pred             ccee
Confidence            7753

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=95.10  E-value=0.026  Score=55.13  Aligned_cols=74  Identities=16%  Similarity=0.245  Sum_probs=61.7

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCC-ceeE--EEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSG-DIER--IEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG-~I~~--I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..|...+||+.++.+||-+||..+- .|..  |.|+.+.  .++|-|||.|.+++.+..|. ...+.....|.|.|-++.
T Consensus       281 dcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S  360 (508)
T KOG1365|consen  281 DCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCS  360 (508)
T ss_pred             CeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeecc
Confidence            4789999999999999999998654 5655  8888775  46899999999999999887 566666779999998774

>PLN03120 nucleic acid binding protein; Provisional

Probab=94.99  E-value=0.014  Score=54.16  Aligned_cols=51  Identities=24%  Similarity=0.344  Sum_probs=41.1

Q ss_pred             hhcHHHHHHHHHhhhhcCCcHHHH-------HHHhhhhhccCcccccccchhhhhhhh
Q 024507          134 AIRQEAVNKAKAFDEKHQFTANAS-------AKVISFDRRVGFTEKLTVGISVVNEKV  184 (266)
Q Consensus       134 vl~d~ai~KA~~fDekhgiSs~~~-------~~v~~lD~k~g~tek~~~g~~~v~~k~  184 (266)
                      -|+-.+..+..+||+|+|+|.++.       .++.++|+|||+|||.....++..+++
T Consensus       136 ~~ss~a~a~v~~~d~k~gltek~~~g~~~v~~~~k~vDeky~vs~kt~sa~~~~~~~~  193 (260)
T PLN03120        136 QLTSTASAKVASLDKKIGLSEKLSAGTAVVNEKVKEVDQKYQVSEKTKSALAAAEQKV  193 (260)
T ss_pred             chHHHHHHHHHhhhhhcCcccccccchHHHHHHHHhhhhhhchhHHHHHHHHHHHHHH
Confidence            345667788999999999999865       789999999999999877665554444

>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]

Probab=94.70  E-value=0.097  Score=49.76  Aligned_cols=70  Identities=14%  Similarity=0.203  Sum_probs=56.7

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCee-EEEEeCCC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQI-VSITPAEN   79 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~-I~V~~a~~   79 (266)
                      =|.|-+++|... .-|-..|+.||+|.+......   ..+-+|.|.+...+.+||-.||..|+|.. |=|.+|.|
T Consensus       199 WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~~n---gNwMhirYssr~~A~KALskng~ii~g~vmiGVkpCtD  269 (350)
T KOG4285|consen  199 WVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTPSN---GNWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPCTD  269 (350)
T ss_pred             eEEEeccCccch-hHHHHHHHhhCeeeeeecCCC---CceEEEEecchhHHHHhhhhcCeeeccceEEeeeecCC
Confidence            477788888765 446667899999988777633   45999999999999999999999999884 66787654

>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]

Probab=94.43  E-value=0.22  Score=48.68  Aligned_cols=74  Identities=19%  Similarity=0.326  Sum_probs=63.7

Q ss_pred             ccEEEEeCCCC-cccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSD-LAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~-~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      +.-+.|-+|.. ....+.|-.+|.-+|.|++|.+++..  .++|.|+..|+.+++.|+ .|||..|-|..|.|.....
T Consensus       287 g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk--~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ  362 (494)
T KOG1456|consen  287 GCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK--PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQ  362 (494)
T ss_pred             CcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc--cceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccc
Confidence            45677888875 55778899999999999999998653  679999999999999999 7999999999999987654

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=94.27  E-value=0.062  Score=49.97  Aligned_cols=73  Identities=11%  Similarity=0.238  Sum_probs=61.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      ...||.+.|.-.++.+.|-.-|..+=.-..-++++|.   .+.++.||-|.++.++..|+ .+||..++.|+|....
T Consensus       190 DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk  266 (290)
T KOG0226|consen  190 DFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK  266 (290)
T ss_pred             cceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence            4689999999999999999999876655566666665   35789999999999999999 6999999999988653

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=94.26  E-value=0.074  Score=55.36  Aligned_cols=69  Identities=22%  Similarity=0.319  Sum_probs=57.5

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCcee--EEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEe
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIE--RIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITP   76 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~--~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~   76 (266)
                      --|...|||+.+...|||.|||-. +|-  -|.|+-  +..|-|||.|.+.++|.-|++.++.+|.|..|+.-.
T Consensus         3 VIIRLqnLP~tAga~DIR~FFSGL-~IPdGgVHIIG--Ge~GeaFI~FsTDeDARlaM~kdr~~i~g~~VrLlL   73 (944)
T KOG4307|consen    3 VIIRLQNLPMTAGASDIRTFFSGL-KIPDGGVHIIG--GEEGEAFIGFSTDEDARLAMTKDRLMIHGAEVRLLL   73 (944)
T ss_pred             eEEEecCCcccccchHHHHhhccc-ccCCCceEEec--ccccceEEEecccchhhhhhhhcccceecceEEEEe
Confidence            367889999999999999999865 443  355553  346899999999999999999999999999888744

>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]

Probab=93.92  E-value=0.16  Score=51.25  Aligned_cols=59  Identities=20%  Similarity=0.296  Sum_probs=48.7

Q ss_pred             HHHHHHcccCCceeEEEEEec-CC-----CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507           19 REIHEFFSFSGDIERIEILRE-YG-----QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus        19 ~dL~efFs~cG~I~~I~l~~d-~~-----~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ++++.=++.+|.|.+|++.++ ..     ..|.-||+|.+.++.+.|+ .|+|..+.||.|..+-+
T Consensus       424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYy  489 (500)
T KOG0120|consen  424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYY  489 (500)
T ss_pred             HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEec
Confidence            345555677899999999987 31     3588999999999999999 69999999999877653

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

Probab=93.61  E-value=0.18  Score=45.23  Aligned_cols=60  Identities=13%  Similarity=0.219  Sum_probs=54.2

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeec
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIV   68 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~   68 (266)
                      ..|.|++||++.++.||+++....|.|-.-++.+|.    +..|+|-..+.++-|+ .|+.+.+.
T Consensus       116 ~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rDg----~GvV~~~r~eDMkYAvr~ld~~~~~  176 (241)
T KOG0105|consen  116 YRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRDG----VGVVEYLRKEDMKYAVRKLDDQKFR  176 (241)
T ss_pred             eeEEEecCCCCCchHHHHHHHHhhCCeeeeeeeccc----ceeeeeeehhhHHHHHHhhcccccc
Confidence            579999999999999999999999999999998774    8999999999999999 58877664

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=93.17  E-value=0.14  Score=52.11  Aligned_cols=72  Identities=18%  Similarity=0.207  Sum_probs=55.8

Q ss_pred             cEEEEeCCCC--cccH----HHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCee-EEE
Q 024507            5 RTVQVKNVSD--LAHE----REIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQI-VSI   74 (266)
Q Consensus         5 ~TV~V~NLs~--~~Te----~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~-I~V   74 (266)
                      ..|.|-|+|-  .+.-    .-|...|+.+|+|..+.++.+.  +..|+.|++|++..+|+.|+ .|||..|+-++ ..|
T Consensus        59 ~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v  138 (698)
T KOG2314|consen   59 SVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFV  138 (698)
T ss_pred             eEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEEe
Confidence            4678888864  1112    2355789999999999998665  56799999999999999999 59999998775 444


Q ss_pred             Ee
Q 024507           75 TP   76 (266)
Q Consensus        75 ~~   76 (266)
                      ..
T Consensus       139 ~~  140 (698)
T KOG2314|consen  139 RL  140 (698)
T ss_pred             eh
Confidence            43

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

Probab=93.16  E-value=0.046  Score=50.62  Aligned_cols=59  Identities=17%  Similarity=0.271  Sum_probs=48.7

Q ss_pred             HHHHHHcc-cCCceeEEEEEecCC--CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507           19 REIHEFFS-FSGDIERIEILREYG--QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus        19 ~dL~efFs-~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ++|...|+ .+|+|+.+.+....+  -.|-+||.|..+++++.|+ .|||.-+.|++|.-...
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            45555555 799999998876653  3689999999999999999 69999999999987654

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=92.98  E-value=0.46  Score=35.10  Aligned_cols=52  Identities=27%  Similarity=0.402  Sum_probs=42.9

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccC---CceeEEEEEecCCCCcEEEEEecChHHHHHHHH
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFS---GDIERIEILREYGQSKTAFVTFKDAKALEIALL   61 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~c---G~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl   61 (266)
                      ..|+|.++.. .+.++|+.||..+   ....+|+.+.|.    .|-|.|.+++.+..||.
T Consensus         6 eavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt----ScNvvf~d~~~A~~AL~   60 (62)
T PF10309_consen    6 EAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT----SCNVVFKDEETAARALV   60 (62)
T ss_pred             ceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC----cEEEEECCHHHHHHHHH
Confidence            4799999854 6778999999876   135789998775    69999999999999984

>PLN03121 nucleic acid binding protein; Provisional

Probab=92.90  E-value=0.18  Score=46.52  Aligned_cols=62  Identities=19%  Similarity=0.261  Sum_probs=47.3

Q ss_pred             cCCcHHHHHHHhhhhhccCcccccccchhhhhhhhhhccccccccHHHHHHHHHHHHhhhhhccccccCcccccchhh
Q 024507          150 HQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRLHVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAW  227 (266)
Q Consensus       150 hgiSs~~~~~v~~lD~k~g~tek~~~g~~~v~~k~k~vD~~~~vs~kt~sa~~~a~~~~~~a~sa~~~~~y~~~ga~w  227 (266)
                      +-|+..+..+...||++++||       +.+..||-++|+|+++|||..++..+.+         -+-.+|..+.-.+
T Consensus       131 yvLgkda~~KAkafDE~h~ls-------s~a~a~v~~~d~~iglt~k~~~g~~~vk---------~vDeky~vs~~tk  192 (243)
T PLN03121        131 YVLGKDALSKAKAFDESHQVS-------ATAAAKVAELSKRIGLTDKIFAGMEAVR---------SVDEKYHVSEFTK  192 (243)
T ss_pred             chhhHHHHHHHHHHHHhcCcc-------HhhhhhhhhhhhhccchhhhhhhHHHHH---------hhhhhhhhHHHHH
Confidence            557788999999999999999       3455899999999999999988875321         2455666554443

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=92.74  E-value=0.13  Score=49.93  Aligned_cols=74  Identities=12%  Similarity=0.185  Sum_probs=60.9

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCC--ceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSG--DIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG--~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +..||+||-|.+|++||-+-....|  .|..+.+..++   .++|||.|...+..+++.-+ +|--.+|.|+.-.|.++.
T Consensus        81 ~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~N  160 (498)
T KOG4849|consen   81 YCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSYN  160 (498)
T ss_pred             EEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeeccc
Confidence            4689999999999999999888777  35555555443   46899999999998888887 699999999998887763

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=92.44  E-value=0.3  Score=46.43  Aligned_cols=59  Identities=22%  Similarity=0.220  Sum_probs=49.0

Q ss_pred             HHHHHHHcccCCceeEEEEEecCC----CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507           18 EREIHEFFSFSGDIERIEILREYG----QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus        18 e~dL~efFs~cG~I~~I~l~~d~~----~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      |+++++--..||+|..|-|...++    ..---||+|+..+++-+|+ .|||..|+||.+.-+-
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            567777788999999999987753    2346899999999999998 6999999999987654

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=92.12  E-value=0.16  Score=47.18  Aligned_cols=76  Identities=21%  Similarity=0.191  Sum_probs=62.1

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHH-hc----CCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALL-LS----GATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALl-Ln----g~~l~g~~I~V~~a   77 (266)
                      ..++|.||++.++-+.+.+-|+.+|+|++--+..|.  ..++-..|.|.+.-.+..|+. ++    +.+..+++.-|.|.
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            579999999999999999999999999987776665  357889999999999999883 43    24556778888777


Q ss_pred             CCC
Q 024507           78 ENY   80 (266)
Q Consensus        78 ~~~   80 (266)
                      ...
T Consensus       112 eq~  114 (275)
T KOG0115|consen  112 EQP  114 (275)
T ss_pred             hcc
Confidence            543

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=91.70  E-value=0.64  Score=40.16  Aligned_cols=66  Identities=20%  Similarity=0.230  Sum_probs=51.4

Q ss_pred             cEEEE----eCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEE
Q 024507            5 RTVQV----KNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSI   74 (266)
Q Consensus         5 ~TV~V----~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V   74 (266)
                      .||.|    .|+.+.-+-+.|....+-+|+|.+|.+.    .++.|.|+|+|-.+|-.|+.--+...-|..+..
T Consensus        87 sTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c----GrqsavVvF~d~~SAC~Av~Af~s~~pgtm~qC  156 (166)
T PF15023_consen   87 STIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC----GRQSAVVVFKDITSACKAVSAFQSRAPGTMFQC  156 (166)
T ss_pred             eeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec----CCceEEEEehhhHHHHHHHHhhcCCCCCceEEe
Confidence            46777    4888877888888999999999999997    367899999999999999953333444554443

>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=91.24  E-value=0.36  Score=42.13  Aligned_cols=68  Identities=19%  Similarity=0.128  Sum_probs=44.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHccc-CCce---eEEEEEecC-----CCCcEEEEEecChHHHHHHH-HhcCCeecCee
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSF-SGDI---ERIEILREY-----GQSKTAFVTFKDAKALEIAL-LLSGATIVDQI   71 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~-cG~I---~~I~l~~d~-----~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~   71 (266)
                      ...|.|.+|||+.||+++.+-.+. .|.-   .++.-....     .....|||.|.+.+.+..-. .++|..+.+..
T Consensus         7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~k   84 (176)
T PF03467_consen    7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSK   84 (176)
T ss_dssp             --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TT
T ss_pred             CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCC
Confidence            468999999999999998886665 6655   344422222     12467999999999977765 69998886654

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.

>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=89.84  E-value=0.073  Score=56.52  Aligned_cols=71  Identities=30%  Similarity=0.309  Sum_probs=60.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEE
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSI   74 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V   74 (266)
                      .+|+|++|+...+++.+|+--|..+|+|+.|.|-.-.  ....++||.|.+-.....|. .+.|..|....+.+
T Consensus       372 trTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~  445 (975)
T KOG0112|consen  372 TRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRI  445 (975)
T ss_pred             hhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCcccc
Confidence            5799999999999999999999999999999997653  23679999999999988887 58888776554444

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=89.45  E-value=0.23  Score=52.64  Aligned_cols=72  Identities=10%  Similarity=0.093  Sum_probs=63.2

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      ..|+|.|.|+..|.++++..|+..|.+++++++...  .+.|.|||.|.++..+..++ ..++..+.-+.+.|..
T Consensus       737 ~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~v  811 (881)
T KOG0128|consen  737 ISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQV  811 (881)
T ss_pred             hhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccc
Confidence            468999999999999999999999999999988765  46899999999999999988 5888888877766654

>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=89.17  E-value=2.4  Score=34.48  Aligned_cols=66  Identities=18%  Similarity=0.241  Sum_probs=47.9

Q ss_pred             cEEEEeCCCC-cccHHHHHHHccc-CCceeEEEEEecCCCCc-EEEEEecChHHHHHHH-HhcCCeecCe
Q 024507            5 RTVQVKNVSD-LAHEREIHEFFSF-SGDIERIEILREYGQSK-TAFVTFKDAKALEIAL-LLSGATIVDQ   70 (266)
Q Consensus         5 ~TV~V~NLs~-~~Te~dL~efFs~-cG~I~~I~l~~d~~~~~-~AyVtF~~~~aa~tAL-lLng~~l~g~   70 (266)
                      .++.+--+|| -.+-++|..|.+. ...|.+++|+++..+.+ .+.+.|.++.+|..=- .+||..+..-
T Consensus        13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fnsl   82 (110)
T PF07576_consen   13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNSL   82 (110)
T ss_pred             ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCCC
Confidence            3444544555 4455667666665 45799999999986555 5899999999998876 7999987643

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=88.02  E-value=0.21  Score=47.76  Aligned_cols=71  Identities=14%  Similarity=0.249  Sum_probs=56.0

Q ss_pred             EEEEeCCCCcccHHH-HH--HHcccCCceeEEEEEecC------CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEE
Q 024507            6 TVQVKNVSDLAHERE-IH--EFFSFSGDIERIEILREY------GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSIT   75 (266)
Q Consensus         6 TV~V~NLs~~~Te~d-L~--efFs~cG~I~~I~l~~d~------~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~   75 (266)
                      -|||-+|++..-.+. |+  ++|..+|+|.+|.+..+.      +....+||||+..+.+..+| -.+|..++|+.++..
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            467778887664444 43  799999999999998755      23456999999999999999 599999999986654


Q ss_pred             e
Q 024507           76 P   76 (266)
Q Consensus        76 ~   76 (266)
                      .
T Consensus       159 ~  159 (327)
T KOG2068|consen  159 L  159 (327)
T ss_pred             h
Confidence            3

>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]

Probab=87.60  E-value=0.28  Score=49.13  Aligned_cols=57  Identities=25%  Similarity=0.296  Sum_probs=51.0

Q ss_pred             cHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEe
Q 024507           17 HEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITP   76 (266)
Q Consensus        17 Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~   76 (266)
                      |-.+|..+|..+|+|..|.+-..   ..-|.|||....++-.|-...+..|++|.|+|..
T Consensus       386 t~a~ln~hfA~fG~i~n~qv~~~---~~~a~vTF~t~aeag~a~~s~~avlnnr~iKl~w  442 (526)
T KOG2135|consen  386 TIADLNPHFAQFGEIENIQVDYS---SLHAVVTFKTRAEAGEAYASHGAVLNNRFIKLFW  442 (526)
T ss_pred             hHhhhhhhhhhcCccccccccCc---hhhheeeeeccccccchhccccceecCceeEEEE
Confidence            67889999999999999998544   4679999999999989999999999999999975

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

Probab=87.37  E-value=2.8  Score=32.98  Aligned_cols=52  Identities=17%  Similarity=0.325  Sum_probs=39.0

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hc
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LS   63 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Ln   63 (266)
                      -.+|+ .|...-..||.++|+.||.| +|..+.|.    .|||...+.+.+..++. ++
T Consensus        11 VFhlt-FPkeWK~~DI~qlFspfG~I-~VsWi~dT----SAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen   11 VFHLT-FPKEWKTSDIYQLFSPFGQI-YVSWINDT----SAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             EEEEE---TT--HHHHHHHCCCCCCE-EEEEECTT----EEEEEECCCHHHHHHHHHHT
T ss_pred             EEEEe-CchHhhhhhHHHHhccCCcE-EEEEEcCC----cEEEEeecHHHHHHHHHHhc
Confidence            34555 89999999999999999985 56666553    79999999999999884 44

; 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.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=86.35  E-value=1.9  Score=43.11  Aligned_cols=67  Identities=15%  Similarity=0.293  Sum_probs=57.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcc-cCCceeEEEEEecCCCCc-EEEEEecChHHHHHHH-HhcCCeecCe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFS-FSGDIERIEILREYGQSK-TAFVTFKDAKALEIAL-LLSGATIVDQ   70 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs-~cG~I~~I~l~~d~~~~~-~AyVtF~~~~aa~tAL-lLng~~l~g~   70 (266)
                      .+.+.|--+|...|..||-.|.. ++-.|.+|++++|+.+.+ ...|.|.+..+|.+-- .+||..+..-
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~l  143 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNSL  143 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCCC
Confidence            46789999999999999998884 567899999999886665 5999999999999987 6999988654

>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]

Probab=85.10  E-value=0.43  Score=49.32  Aligned_cols=69  Identities=25%  Similarity=0.125  Sum_probs=59.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      +..+|||+||+..+..+-++-...+||-|.++...      .|+|..|.++.+.-.|+ +|+--.++|+.+.+...
T Consensus        39 ~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~------~fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d  108 (668)
T KOG2253|consen   39 PRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD------KFGFCEFLKHIGDLRASRLLTELNIDDQKLIENVD  108 (668)
T ss_pred             CCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh------hhcccchhhHHHHHHHHHHhcccCCCcchhhccch
Confidence            34699999999999999999999999998877654      29999999999888887 68888999998887764

>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]

Probab=84.55  E-value=1.1  Score=44.00  Aligned_cols=65  Identities=20%  Similarity=0.227  Sum_probs=54.0

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH---hcCCeecCeeE
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL---LSGATIVDQIV   72 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl---Lng~~l~g~~I   72 (266)
                      -.|+|.||-..++|.||-+-.+.+|.|-.+.+...   ++.|.|+|+|-+.++.++.   -|.-.+.|+.-
T Consensus        32 pvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~---~r~alvefedi~~akn~Vnfaa~n~i~i~gq~A   99 (494)
T KOG1456|consen   32 PVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPH---KRQALVEFEDIEGAKNCVNFAADNQIYIAGQQA   99 (494)
T ss_pred             ceEEEeccccccchhHHHHHHhcCCceEEEEeccc---cceeeeeeccccchhhheehhccCcccccCchh
Confidence            36999999999999999999999999999988754   6689999999999999883   33344555543

>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=84.38  E-value=2.7  Score=37.14  Aligned_cols=58  Identities=19%  Similarity=0.231  Sum_probs=44.8

Q ss_pred             cHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-Hhc--CCeecCeeEEEEeC
Q 024507           17 HEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLS--GATIVDQIVSITPA   77 (266)
Q Consensus        17 Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLn--g~~l~g~~I~V~~a   77 (266)
                      ..+.|+++|+.++.+..+..++.   .+-..|.|.+.+.|..|. .|+  +..+.|..++|--.
T Consensus         8 ~~~~l~~l~~~~~~~~~~~~L~s---FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~   68 (184)
T PF04847_consen    8 NLAELEELFSTYDPPVQFSPLKS---FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFG   68 (184)
T ss_dssp             -HHHHHHHHHTT-SS-EEEEETT---TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE--
T ss_pred             hHHHHHHHHHhcCCceEEEEcCC---CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEc
Confidence            35789999999999988888743   678999999999999997 688  99999999998654

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.

>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=83.73  E-value=4.2  Score=30.16  Aligned_cols=58  Identities=29%  Similarity=0.377  Sum_probs=34.6

Q ss_pred             CcccHHHHHHHcccCC-----ceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507           14 DLAHEREIHEFFSFSG-----DIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus        14 ~~~Te~dL~efFs~cG-----~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ...+..+|..++...+     .|-+|+|.     ..++||+-... .++.++ .|++..+.|++|.|+++
T Consensus        11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~-----~~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve~A   74 (74)
T PF03880_consen   11 DGLTPRDIVGAICNEAGIPGRDIGRIDIF-----DNFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVERA   74 (74)
T ss_dssp             GT--HHHHHHHHHTCTTB-GGGEEEEEE------SS-EEEEE-TT--HHHHHHHHTT--SSS----EEE-
T ss_pred             cCCCHHHHHHHHHhccCCCHHhEEEEEEe-----eeEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEEEC
Confidence            3578889999998664     45578876     44899998875 555666 79999999999999864

; PDB: 2G0C_A 3MOJ_B.

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=82.49  E-value=0.38  Score=47.25  Aligned_cols=73  Identities=18%  Similarity=0.087  Sum_probs=60.0

Q ss_pred             ccEEEEeCCCCc-ccHHHHHHHcccCCceeEEEEEecC-CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEe
Q 024507            4 TRTVQVKNVSDL-AHEREIHEFFSFSGDIERIEILREY-GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~-~Te~dL~efFs~cG~I~~I~l~~d~-~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~   76 (266)
                      .+++||+++.+. ++-.+...+|-|++...-|.+..+. .+..+||+.|.+..++.-+|..||..+.+++++...
T Consensus        52 sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~~~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~n  126 (479)
T KOG4676|consen   52 SRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPYGDEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKIN  126 (479)
T ss_pred             eeeEEEeccCCcceeHHhhhccceeeeeeEEEEecCCCCCccHHHHHhcCcccccccccCCCCccCCCCcccccc
Confidence            479999999985 5678888999999888777777665 356679999999999999999999888888886543

>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=82.24  E-value=2.5  Score=34.62  Aligned_cols=59  Identities=14%  Similarity=0.168  Sum_probs=35.6

Q ss_pred             EEEEeCCCCcc---------cHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecCh-HHHHHHHHhcC
Q 024507            6 TVQVKNVSDLA---------HEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDA-KALEIALLLSG   64 (266)
Q Consensus         6 TV~V~NLs~~~---------Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~-~aa~tALlLng   64 (266)
                      ++.|-|++...         +-++|++.|+.+..++-..+....+..+++.|.|.+. .+...|+.|..
T Consensus        10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv~~l~~~~gh~g~aiv~F~~~w~Gf~~A~~l~~   78 (116)
T PF03468_consen   10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPLYGKQGHTGFAIVEFNKDWSGFKNAMRLEK   78 (116)
T ss_dssp             EEEEE----EE-TTS-EE---SHHHHHHHHH---SEEEEEEETTEEEEEEEEE--SSHHHHHHHHHHHH
T ss_pred             EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCceeEECcCCCCCcEEEEEEECCChHHHHHHHHHHH
Confidence            67888886643         5678999998777765444444446789999999865 67888886653

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	266
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	6e-09
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	5e-08
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	2e-07
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	3e-07
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	6e-07
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	1e-06
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	2e-06
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	4e-06
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	1e-05
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	2e-05
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	2e-05
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	2e-05
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	2e-05
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	3e-05
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	3e-05
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	3e-05
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	6e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-05
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	8e-05
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	9e-05
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	1e-04
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	1e-04
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	1e-04
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	2e-04
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	2e-04
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	2e-04
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	3e-04
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	3e-04
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	3e-04
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	4e-04
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	4e-04
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	5e-04
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	6e-04
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	6e-04
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	6e-04
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	7e-04
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	8e-04
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	9e-04

>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 = 51.9 bits (125), Expect = 6e-09
 Identities = 18/77 (23%), Positives = 41/77 (53%), Gaps = 3/77 (3%)

Query: 5   RTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSK-TAFVTFKDAKALEIALL 61
           RTV    ++     R++ +FFS  G +  + I+  R   +SK  A+V F + +++ +A+ 
Sbjct: 26  RTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG 85

Query: 62  LSGATIVDQIVSITPAE 78
           L+G  ++   + +  ++
Sbjct: 86  LTGQRLLGVPIIVQASQ 102

>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 = 50.8 bits (122), Expect = 5e-08
 Identities = 21/124 (16%), Positives = 39/124 (31%), Gaps = 15/124 (12%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL-------REYGQSKT-AFVTFKDAK 54
             R + V N+     E  + +FF+    +  +           +  Q K  AF+ F+   
Sbjct: 3   MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62

Query: 55  ALEIALLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTSPSSSG 114
               A+   G     Q + I    +Y P P   E                     P S+ 
Sbjct: 63  ETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSE-------NPSVYVPGVVSTVVPDSAH 115

Query: 115 RMYV 118
           ++++
Sbjct: 116 KLFI 119

>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 = 47.1 bits (113), Expect = 2e-07
 Identities = 20/82 (24%), Positives = 36/82 (43%), Gaps = 3/82 (3%)

Query: 4  TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSK-TAFVTFKDAKALEIAL 60
           R++ V NV   A   E+   F   G + R+ IL  +  G  K  A++ F D +++  +L
Sbjct: 6  ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65

Query: 61 LLSGATIVDQIVSITPAENYVP 82
           L  +    + + + P     P
Sbjct: 66 ALDESLFRGRQIKVIPKRTNRP 87

>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 = 47.4 bits (113), Expect = 3e-07
 Identities = 21/86 (24%), Positives = 39/86 (45%), Gaps = 3/86 (3%)

Query: 4   TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSK-TAFVTFKDAKALEIAL 60
            R+V V NV   +  +++   FS  G I RI IL  +  G  K  A++ F +  +++ A+
Sbjct: 36  KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV 95

Query: 61  LLSGATIVDQIVSITPAENYVPKPES 86
            +       + + + P    +P   S
Sbjct: 96  AMDETVFRGRTIKVLPKRTNMPGISS 121

>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 = 47.6 bits (114), Expect = 6e-07
 Identities = 15/93 (16%), Positives = 35/93 (37%), Gaps = 2/93 (2%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL-REYGQSK-TAFVTFKDAKALEIAL 60
               + + N++      E+    S       + ++    G ++   +V F+ A+ LE AL
Sbjct: 12  TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKAL 71

Query: 61  LLSGATIVDQIVSITPAENYVPKPESQEVTVVV 93
            L+G  +    + +   +    K      T++ 
Sbjct: 72  ELTGLKVFGNEIKLEKPKGRDSKKVRAARTLLA 104

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

 Score = 45.1 bits (107), Expect = 1e-06
 Identities = 16/82 (19%), Positives = 33/82 (40%), Gaps = 2/82 (2%)

Query: 2  QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSK-TAFVTFKDAKALEIA 59
           + R+V +K     A   +I E+    G +  I++ R      K + FV F   ++ +  
Sbjct: 9  VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKF 68

Query: 60 LLLSGATIVDQIVSITPAENYV 81
          +   G    +  + I   ++Y 
Sbjct: 69 VETPGQKYKETDLLILFKDDYF 90

>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 = 44.7 bits (106), Expect = 2e-06
 Identities = 20/102 (19%), Positives = 39/102 (38%), Gaps = 9/102 (8%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKT--AFVTFKDAKALEIAL 60
               V V  +   A E ++ +FF     ++ + +L+++         V F   +    AL
Sbjct: 15  DDLYVSVHGMPFSAMENDVRDFFH-GLRVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEAL 73

Query: 61  LLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSG 102
             +   ++ + V ++PA       E Q V    +  S   SG
Sbjct: 74  KRNRMLMIQRYVEVSPAT------ERQWVAAGGHITSGPSSG 109

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

 Score = 43.5 bits (103), Expect = 4e-06
 Identities = 16/78 (20%), Positives = 29/78 (37%), Gaps = 2/78 (2%)

Query: 2  QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL 61
             R+V V          ++ E+F   G +  + + ++ G    A V   D  A E  L 
Sbjct: 6  SGLRSVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKG--VFAIVEMGDVGAREAVLS 63

Query: 62 LSGATIVDQIVSITPAEN 79
           S  ++    + + P E 
Sbjct: 64 QSQHSLGGHRLRVRPREQ 81

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

 Score = 42.0 bits (99), Expect = 1e-05
 Identities = 13/74 (17%), Positives = 29/74 (39%), Gaps = 4/74 (5%)

Query: 5  RTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSK-TAFVTFKDAKALEIAL- 60
          + V    ++D   E  + +     G++E +EIL      +    A V F   +  +  + 
Sbjct: 7  KEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVK 66

Query: 61 LLSGATIVDQIVSI 74
           L   +++  I+  
Sbjct: 67 NLHLTSVMGNIIHA 80

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

 Score = 44.2 bits (105), Expect = 2e-05
 Identities = 22/89 (24%), Positives = 45/89 (50%), Gaps = 8/89 (8%)

Query: 1   MQQTRTVQVKNVSDLAH-EREIHEFFSFSGDIERIEILR---EYGQSK-TAFVTFKDAKA 55
             + R + ++N+S     E  + E F   G IE+I I     E+  +   AF+ F++  +
Sbjct: 207 TLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDS 266

Query: 56  LEIALLLSGATIVDQIVSITPAENYVPKP 84
            E AL ++ + + ++ +S++ A+    KP
Sbjct: 267 AERALQMNRSLLGNREISVSLAD---KKP 292

>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 = 43.8 bits (104), Expect = 2e-05
 Identities = 11/75 (14%), Positives = 31/75 (41%), Gaps = 1/75 (1%)

Query: 6   TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSK-TAFVTFKDAKALEIALLLSG 64
           TV VKN+    ++ +++++F   G I  +++     ++   A + F        A+  + 
Sbjct: 43  TVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTH 102

Query: 65  ATIVDQIVSITPAEN 79
             +    + ++    
Sbjct: 103 KVVGQNEIIVSHLTE 117

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 41.1 bits (97), Expect = 2e-05
 Identities = 14/74 (18%), Positives = 31/74 (41%), Gaps = 5/74 (6%)

Query: 3  QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-- 60
             T+ V  + D   E ++   F   G+I  I +++       AF+ F   +A E+A   
Sbjct: 11 TITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQ---CAFIQFATRQAAEVAAEK 67

Query: 61 LLSGATIVDQIVSI 74
            +   +  + +++
Sbjct: 68 SFNKLIVNGRRLNV 81

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

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 11/60 (18%), Positives = 22/60 (36%)

Query: 1  MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL 60
           Q+ R +Q++N+        +       G +E  E +    ++    VT+        AL
Sbjct: 12 RQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQAL 71

>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 = 43.1 bits (102), Expect = 3e-05
 Identities = 21/89 (23%), Positives = 38/89 (42%), Gaps = 6/89 (6%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSK-TAFVTFKDAKALEIA 59
             + + V  + +   E  + ++F   G IE IEI+  R  G+ +  AFVTF D  +++  
Sbjct: 103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 162

Query: 60  LLLSGATIVDQIVSITPAENYVPKPESQE 88
           ++    T+      +  A     K E   
Sbjct: 163 VIQKYHTVNGHNCEVRKAL---SKQEMAS 188

>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 = 41.3 bits (97), Expect = 3e-05
 Identities = 16/79 (20%), Positives = 30/79 (37%), Gaps = 3/79 (3%)

Query: 2  QQTRTVQVKNVSDLAHEREIHEFFS-FSGDIERIEILREYGQSKT--AFVTFKDAKALEI 58
               V+++ +     + EI +FFS        + +  ++    T  AFV F   +  E 
Sbjct: 13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEK 72

Query: 59 ALLLSGATIVDQIVSITPA 77
          AL      I  + + I  +
Sbjct: 73 ALKKHKERIGHRYIEIFKS 91

>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 = 41.4 bits (97), Expect = 3e-05
 Identities = 16/80 (20%), Positives = 29/80 (36%), Gaps = 3/80 (3%)

Query: 1   MQQTRTVQVKNVSDLAHEREIHEFFS-FSGDIERIEILREYGQSKT--AFVTFKDAKALE 57
                 V+++ +     + EI +FFS        I +  +     T  AFV F   +  E
Sbjct: 39  SANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAE 98

Query: 58  IALLLSGATIVDQIVSITPA 77
            AL      I  + + +  +
Sbjct: 99  KALGKHKERIGHRYIEVFKS 118

>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 = 40.6 bits (95), Expect = 6e-05
 Identities = 15/79 (18%), Positives = 30/79 (37%), Gaps = 3/79 (3%)

Query: 2   QQTRTVQVKNVSDLAHEREIHEFFSFSGDIE-RIEILREYGQSKT--AFVTFKDAKALEI 58
           +    V +K +   A  + + +FF     +E  I I        T   FV F++    + 
Sbjct: 23  EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKA 82

Query: 59  ALLLSGATIVDQIVSITPA 77
           AL      + ++ + + P 
Sbjct: 83  ALCRHKQYMGNRFIQVHPI 101

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 42.9 bits (100), Expect = 7e-05
 Identities = 41/325 (12%), Positives = 75/325 (23%), Gaps = 127/325 (39%)

Query: 9   VKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIV 68
            K+V D+   + I    S   +I+   I+            F         LL     +V
Sbjct: 35  CKDVQDM--PKSI---LS-KEEID--HIIMSKDAVSGTLRLF-------WTLLSKQEEMV 79

Query: 69  DQIVSITPAENYVPKPESQEVTVVVNAVSE---APSGN--------NEGKTSPSSSGRMY 117
            + V      NY           +++ +      PS          +          +  
Sbjct: 80  QKFVEEVLRINY---------KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130

Query: 118 VNRAQEV---------------VT---------SVLARGSAIRQEAVNKAKAF------- 146
           V+R Q                 V          + +A         V     F       
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVA-LDVCLSYKVQCKMDFKIFWLNL 189

Query: 147 -----DEK---------HQFTANASAKVISFDRRVGFTEKLTVGISVVNEKVKSVDQRL- 191
                 E          +Q   N +++                 I +    +++  +RL 
Sbjct: 190 KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN-----------IKLRIHSIQAELRRLL 238

Query: 192 -------------HVSDKTMAAIFAAERKINDTGSAVKTSRYVTAGTAWLNGAFSKVARA 238
                        +V +      F    KI      + T+R+             +V   
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFNLSCKI------LLTTRF------------KQVTDF 280

Query: 239 GQVAGTKTREKFSVAVS-NLTAKES 262
             ++   T        S  LT  E 
Sbjct: 281 --LSAATTTHISLDHHSMTLTPDEV 303

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

 Score = 40.4 bits (95), Expect = 8e-05
 Identities = 12/60 (20%), Positives = 30/60 (50%), Gaps = 2/60 (3%)

Query: 2  QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSK-TAFVTFKDAKALEIAL 60
          +  R + ++N+       E+++ F   G I +I +     +++ TA+V ++D    + A+
Sbjct: 6  EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT-PETRGTAYVVYEDIFDAKNAV 64

>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 = 41.1 bits (97), Expect = 9e-05
 Identities = 18/95 (18%), Positives = 34/95 (35%), Gaps = 8/95 (8%)

Query: 3  QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL-------REYGQSKT-AFVTFKDAK 54
            R + V N+     E  + +FF+    +  +           +  Q K  AF+ F+   
Sbjct: 3  SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVD 62

Query: 55 ALEIALLLSGATIVDQIVSITPAENYVPKPESQEV 89
              A+   G     Q + I    +Y P P + ++
Sbjct: 63 ETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKL 97

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

 Score = 39.6 bits (93), Expect = 1e-04
 Identities = 11/74 (14%), Positives = 26/74 (35%), Gaps = 4/74 (5%)

Query: 2  QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL 61
           +  T  + N+   A E ++   F   G I   +   E G     F+ +   +   + ++
Sbjct: 25 PRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKG---CCFIKYDTHEQAAVCIV 81

Query: 62 -LSGATIVDQIVSI 74
           L+      + +  
Sbjct: 82 ALANFPFQGRNLRT 95

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

 Score = 39.6 bits (93), Expect = 1e-04
 Identities = 18/98 (18%), Positives = 39/98 (39%), Gaps = 13/98 (13%)

Query: 1   MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSK-TAFVTFKDA---- 53
           + + +TV ++N+S  + E  + E     GD++ + ++   +   SK  AF  F       
Sbjct: 12  VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQ 71

Query: 54  ---KALEIALLLSGATIVDQIVSITPAENYVPKPESQE 88
               A  +     G  +  + + +  A   V + E+  
Sbjct: 72  KCLAAASLEAEGGGLKLDGRQLKVDLA---VTRDEAAS 106

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

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 16/92 (17%), Positives = 38/92 (41%), Gaps = 7/92 (7%)

Query: 2   QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSKT-AFVTFKDAKALEI 58
                V V ++     E  I + F+  G I+ I++       + K  AFV ++  +A ++
Sbjct: 26  AIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQL 85

Query: 59  AL-LLSGATIVDQIVSITPAENYVPKPESQEV 89
           AL  ++   +  + + +          ++Q +
Sbjct: 86  ALEQMNSVMLGGRNIKVGRP---SNIGQAQPI 114

>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 = 39.2 bits (92), Expect = 2e-04
 Identities = 22/105 (20%), Positives = 49/105 (46%), Gaps = 15/105 (14%)

Query: 1   MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKD----AKAL 56
           M + + + V+N+++   E  + + FS  G +ER++ L++Y      F+ F +     KA+
Sbjct: 8   MAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKDYA-----FIHFDERDGAVKAM 62

Query: 57  EIALLLSGATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPS 101
           E    ++G  +  + + I  A+   P  + ++        +  PS
Sbjct: 63  EE---MNGKDLEGENIEIVFAK---PPDQKRKERKAQRQAASGPS 101

>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 = 39.8 bits (94), Expect = 2e-04
 Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 3/81 (3%)

Query: 1   MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSKT-AFVTFKDAKALE 57
             +T  + V  +      +E  EFFS  G I   +++  ++ GQS+   FVT+  A A++
Sbjct: 84  QDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVD 143

Query: 58  IALLLSGATIVDQIVSITPAE 78
                      D+ + I  AE
Sbjct: 144 RVCQNKFIDFKDRKIEIKRAE 164

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Length = 165

 Score = 39.8 bits (93), Expect = 2e-04
 Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 4/89 (4%)

Query: 3   QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSKT-AFVTFKDAKALEIA 59
           +   + V ++ + A E EI E F   G+I+ I +   R  G SK  A V ++  K    A
Sbjct: 71  EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 130

Query: 60  L-LLSGATIVDQIVSITPAENYVPKPESQ 87
              L+GA I+ Q + +       PK   +
Sbjct: 131 KEALNGAEIMGQTIQVDWCFVKGPKRVKK 159

>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 = 39.8 bits (92), Expect = 3e-04
 Identities = 17/85 (20%), Positives = 34/85 (40%), Gaps = 2/85 (2%)

Query: 1   MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSK-TAFVTFKDAKALEI 58
             + R+V +K     A   +I E+    G +  I++ R      K + FV F   ++ + 
Sbjct: 106 DVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKK 165

Query: 59  ALLLSGATIVDQIVSITPAENYVPK 83
            +   G    +  + I   ++Y  K
Sbjct: 166 FVETPGQKYKETDLLILFKDDYFAK 190

>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 = 38.4 bits (89), Expect = 3e-04
 Identities = 8/77 (10%), Positives = 29/77 (37%), Gaps = 5/77 (6%)

Query: 6  TVQVKNVSDLAHEREIHEFFS---FSGDIERIEILREYGQSKT--AFVTFKDAKALEIAL 60
           V+++ +       ++  F S       +  +  +      ++  AFV  +    +++AL
Sbjct: 19 VVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLAL 78

Query: 61 LLSGATIVDQIVSITPA 77
               ++  + + +  +
Sbjct: 79 KKDRESMGHRYIEVFKS 95

>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 = 38.2 bits (89), Expect = 3e-04
 Identities = 11/77 (14%), Positives = 25/77 (32%), Gaps = 3/77 (3%)

Query: 4  TRTVQVKNVSDLAHEREIHEFFS-FSGDIERIEILREY-GQSK-TAFVTFKDAKALEIAL 60
               + N+     + ++ +F      D   + +L +  GQ    A V FK+      + 
Sbjct: 15 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSE 74

Query: 61 LLSGATIVDQIVSITPA 77
           L    +  +   +   
Sbjct: 75 RLHRKKLNGREAFVHVV 91

>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 = 37.7 bits (88), Expect = 4e-04
 Identities = 15/79 (18%), Positives = 34/79 (43%), Gaps = 3/79 (3%)

Query: 3  QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKT--AFVTFKDAKALEIAL 60
             TV+++       E+ + EF +       I I+R    +KT   FV F + + ++ AL
Sbjct: 9  TCHTVKLRGAPFNVTEKNVMEFLA-PLKPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQAL 67

Query: 61 LLSGATIVDQIVSITPAEN 79
            +   +  + + +   ++
Sbjct: 68 KCNREYMGGRYIEVFREKS 86

>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 = 37.6 bits (88), Expect = 4e-04
 Identities = 16/67 (23%), Positives = 28/67 (41%), Gaps = 5/67 (7%)

Query: 5  RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILR---EYGQSK-TAFVTFKDAKALEIAL 60
           T  + N+     E  I EFF    +I  + + R      + K   +  F+D  +L  AL
Sbjct: 20 YTAFLGNLPYDVTEESIKEFFR-GLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL 78

Query: 61 LLSGATI 67
           L+  ++
Sbjct: 79 SLNEESL 85

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 37.6 bits (88), Expect = 5e-04
 Identities = 17/87 (19%), Positives = 37/87 (42%), Gaps = 7/87 (8%)

Query: 5  RTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSKT-AFVTFKDAKALEIALL 61
           T  V N+     + +I   F     I  + ++  ++  + K   +V F +  +L+ AL 
Sbjct: 16 YTAYVGNLPFNTVQGDIDAIFK-DLSIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALT 74

Query: 62 LSGATIVDQIVSITPAENYVPKPESQE 88
            GA + D+ + +  AE    + + + 
Sbjct: 75 YDGALLGDRSLRVDIAE---GRKQDKS 98

>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 = 37.9 bits (88), Expect = 6e-04
 Identities = 22/106 (20%), Positives = 36/106 (33%), Gaps = 8/106 (7%)

Query: 5   RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LS 63
             +  KN+       EI E FS  G + R+ +        TA V F +      A   L+
Sbjct: 11  TVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGI---TAIVEFLEPLEARKAFRHLA 67

Query: 64  GATIVDQIVSITPAENYVPKPESQEVTVVVNAVSEAPSGNNEGKTS 109
            +      + +  A   V     Q+     ++  E P+   E   S
Sbjct: 68  YSKFHHVPLYLEWAPIGVFGAAPQK----KDSQHEQPAEKAESGPS 109

>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 = 38.3 bits (89), Expect = 6e-04
 Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 3/65 (4%)

Query: 5   RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSK-TAFVTFKDAKALEIALLL 62
             V ++ +   A E +I+ FFS   +  R+ I     G+    A V F   +    A+  
Sbjct: 47  HCVHMRGLPYKATENDIYNFFS-PLNPVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSK 105

Query: 63  SGATI 67
             A +
Sbjct: 106 DRANM 110

>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 = 37.2 bits (87), Expect = 6e-04
 Identities = 13/81 (16%), Positives = 33/81 (40%), Gaps = 5/81 (6%)

Query: 9  VKNVSDLAHEREIHEFFSFSGDIERIEIL-REYGQSKT-AFVTFKDAKALEIALLLSGAT 66
          + N++      E+    S       + ++    G ++   +V F+ A+ LE AL L+G  
Sbjct: 22 IGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLK 81

Query: 67 IVDQIVSITPAENYVPKPESQ 87
          +    + +   +    +  ++
Sbjct: 82 VFGNEIKLEKPK---GRDGTR 99

>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 = 39.4 bits (91), Expect = 7e-04
 Identities = 17/88 (19%), Positives = 34/88 (38%), Gaps = 4/88 (4%)

Query: 5   RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILR--EYGQSKT-AFVTFKDAKALEIALL 61
           +T+ V  V+    E ++   F   G I+RI ++     G+ +  AF+ ++  + +  A  
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162

Query: 62  -LSGATIVDQIVSITPAENYVPKPESQE 88
              G  I  + V +        K     
Sbjct: 163 HADGKKIDGRRVLVDVERGRTVKGWRPR 190

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 38.9 bits (91), Expect = 8e-04
 Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 2/61 (3%)

Query: 2   QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILR-EYGQSK-TAFVTFKDAKALEIA 59
                + VKN+S +     + + FS  G +E+  ++  + G++    FV F        A
Sbjct: 94  THGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKA 153

Query: 60  L 60
           L
Sbjct: 154 L 154

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 37.9 bits (88), Expect = 9e-04
 Identities = 22/92 (23%), Positives = 44/92 (47%), Gaps = 7/92 (7%)

Query: 1   MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL--REYGQSKT-AFVTFKDAKALE 57
           ++++ T+ V N+S    E +I+E FS SGDI++I +   +    +    FV +      E
Sbjct: 36  LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAE 95

Query: 58  IAL-LLSGATIVDQIVSITPAENYVPKPESQE 88
            A+  ++G  + D+I+            E ++
Sbjct: 96  NAMRYINGTRLDDRIIRTDWDA---GFKEGRQ 124

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	266
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.74
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.71
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.7
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.69
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.69
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.69
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.68
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.68
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.68
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.68
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.68
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.68
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.68
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.68
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.68
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.67
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.67
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.67
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.67
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.67
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.67
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.66
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.66
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.66
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.66
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.66
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.65
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.65
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.65
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.65
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.65
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.65
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.65
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.65
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.65
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.65
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.65
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.65
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.65
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.65
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.65
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.65
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.65
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.64
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.64
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.64
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.64
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.64
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.64
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.64
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.64
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.64
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.64
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.64
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.64
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.63
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.63
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.63
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.63
2div_A	99	TRNA selenocysteine associated protein; structural	99.63
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.63
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.63
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.63
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.63
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.63
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.63
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.63
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.63
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.62
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.62
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.62
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.62
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.62
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.62
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.62
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.62
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.62
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.62
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.62
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.62
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.61
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.61
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.61
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.61
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.61
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.61
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.61
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.61
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.61
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.61
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.61
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.61
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.61
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.61
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.61
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.6
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.6
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.6
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.6
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.6
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.6
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.6
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.6
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.6
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.6
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.59
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.59
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.59
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.59
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.59
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.59
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.59
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.58
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.58
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.58
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.58
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.58
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.58
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.58
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.58
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.57
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.57
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.57
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.57
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.57
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.57
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.57
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.56
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.56
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.56
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.56
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.56
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.56
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.55
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.55
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.55
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.55
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.55
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.55
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.54
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.54
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.54
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.54
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.54
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.53
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.53
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.53
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.53
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.53
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.52
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.51
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.51
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.51
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.51
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.5
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.5
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.5
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.5
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.5
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.5
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.5
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.5
1x5p_A	97	Negative elongation factor E; structure genomics,	99.5
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.49
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.49
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.49
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.23
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.47
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.47
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.46
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.46
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.45
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.44
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.44
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.43
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.43
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.43
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.43
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.43
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.42
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.42
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.41
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.4
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.4
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.39
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.39
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.39
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.39
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.38
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.38
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.38
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.37
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.34
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.33
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.32
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.3
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.3
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.28
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.21
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.17
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.14
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.08
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.04
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.02
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.0
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.87
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.75
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.36
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.32
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	98.02
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	97.84
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	97.04
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	96.79
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	96.57
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	96.32
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	94.58
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	94.55
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	92.99
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	87.49
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	84.58

>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=99.74  E-value=1.2e-17  Score=129.31  Aligned_cols=75  Identities=23%  Similarity=0.364  Sum_probs=69.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ++++|||+|||+.+|+++|+++|+.||+|.+|+|.++..   .+|+|||+|.++++|+.|+ .|||..|+|++|+|..+
T Consensus        18 ~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~A   96 (99)
T 4fxv_A           18 QGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYA   96 (99)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            468999999999999999999999999999999998863   4689999999999999999 59999999999999875

>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=99.71  E-value=5e-17  Score=120.92  Aligned_cols=76  Identities=22%  Similarity=0.387  Sum_probs=70.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.+..+.   ..+++|||+|.++++++.|+.|||..|.|+.|.|.++..
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 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFRGRQIKVIPKRT   84 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHGGGTTCEETTEECEEEETTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHhcCCCEECCcEEEEEEccC
Confidence            5899999999999999999999999999999999875   247899999999999999999999999999999998643

>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=99.70  E-value=4e-17  Score=128.83  Aligned_cols=76  Identities=20%  Similarity=0.312  Sum_probs=70.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ..+|||+|||+.+|+++|+++|+.||+|.+|+|+.+.+ ++|+|||+|+++++|+.|+ .|||..|+|+.|.|..+..
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~   82 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKS   82 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSC
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            46899999999999999999999999999999998874 4689999999999999999 6999999999999998753

>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=99.69  E-value=1e-16  Score=119.25  Aligned_cols=75  Identities=17%  Similarity=0.262  Sum_probs=69.2

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|+.+..   .+|+|||+|.++++++.|+.++|..|+|+.|.|..+
T Consensus        10 ~~~~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           10 DAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPKKA   87 (87)
T ss_dssp             CTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHSSCEEETTEEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            358999999999999999999999999999999998852   368999999999999999999999999999999763

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

Probab=99.69  E-value=2.1e-17  Score=129.40  Aligned_cols=77  Identities=18%  Similarity=0.263  Sum_probs=71.0

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      +.++|||+|||+.+|+++|+++|+.||+|.+|+|+.+.  .++|+|||+|+++++|+.||.+||..|+|+.|.|....+
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 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKDD   88 (103)
T ss_dssp             GGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHTSSCCCCTTTTCEEEEHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEchH
Confidence            35899999999999999999999999999999999876  357899999999999999999999999999999987543

>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=99.69  E-value=1e-16  Score=122.29  Aligned_cols=78  Identities=19%  Similarity=0.212  Sum_probs=72.0

Q ss_pred             CCccEEEEeCCCCcccHHHHH----HHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEe
Q 024507            2 QQTRTVQVKNVSDLAHEREIH----EFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITP   76 (266)
Q Consensus         2 ~~~~TV~V~NLs~~~Te~dL~----efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~   76 (266)
                      .+.++|||+|||+.+++++|+    ++|+.||+|.+|+|..+...+++|||+|+++++|+.|+. |||..|+|+.|+|..
T Consensus         7 ~~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~   86 (96)
T 2dgx_A            7 GNGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSL   86 (96)
T ss_dssp             SSCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCCCeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            356899999999999999999    999999999999999887558899999999999999995 999999999999998


Q ss_pred             CCC
Q 024507           77 AEN   79 (266)
Q Consensus        77 a~~   79 (266)
                      +..
T Consensus        87 a~~   89 (96)
T 2dgx_A           87 ATG   89 (96)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            743

>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=99.68  E-value=3.2e-16  Score=120.18  Aligned_cols=77  Identities=21%  Similarity=0.355  Sum_probs=71.0

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC-CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~-~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|..+. ..+++|||+|.++++|+.|+. |||..|+|+.|.|..+..
T Consensus        14 ~~~~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           14 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATA   92 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccc
Confidence            35899999999999999999999999999999999886 357899999999999999995 999999999999998654

>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=99.68  E-value=1.2e-16  Score=117.94  Aligned_cols=75  Identities=23%  Similarity=0.365  Sum_probs=69.4

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|..+..   .+++|||+|.++++|+.|+ .|||..|+|+.|+|..+
T Consensus         6 ~~~~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            6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   84 (85)
T ss_dssp             CSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            468999999999999999999999999999999988752   4789999999999999999 69999999999999865

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

Probab=99.68  E-value=2.5e-16  Score=119.99  Aligned_cols=76  Identities=20%  Similarity=0.354  Sum_probs=70.7

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|..+..   .+++|||+|.++++|+.|+.|||..|+|+.|.|..+.
T Consensus         9 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~l~V~~a~   87 (99)
T 2dgs_A            9 KSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDIMGKKVEVKRAE   87 (99)
T ss_dssp             SCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHHHCCCBSSSCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            358999999999999999999999999999999998752   5789999999999999999999999999999999864

>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=99.68  E-value=2e-16  Score=116.26  Aligned_cols=75  Identities=13%  Similarity=0.146  Sum_probs=69.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      +++|||+|||+.+++++|+++|+.||+|.+|.+..+.   ...++|||+|.++++|+.|+. |||..|+|++|.|..+.
T Consensus         1 t~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   79 (83)
T 3md1_A            1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAA   79 (83)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecC
Confidence            3689999999999999999999999999999999885   246899999999999999995 99999999999998764

>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=99.68  E-value=1.7e-16  Score=119.67  Aligned_cols=75  Identities=23%  Similarity=0.402  Sum_probs=69.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.|..+..  .+++|||+|.++++|+.|+. |||..|+|+.|.|..+.
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            58999999999999999999999999999999998763  46899999999999999995 99999999999998764

>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=99.68  E-value=1.7e-16  Score=117.51  Aligned_cols=76  Identities=18%  Similarity=0.191  Sum_probs=69.3

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|..+..   .+++|||+|.++++|+.|+. |||..|+|+.|.|..+.
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            468999999999999999999999999999999998752   46899999999999999995 99999999999998753

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

Probab=99.68  E-value=1.8e-16  Score=125.18  Aligned_cols=75  Identities=17%  Similarity=0.224  Sum_probs=69.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+||++.+++++|+++|+.||+|.+|.|+.+..   ++|+|||+|+++++|+.|+ .|||..|.|+.|.|..+.
T Consensus         6 ~~~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            6 LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDI   84 (110)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            58999999999999999999999999999999998863   4689999999999999999 599999999999998763

>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=99.68  E-value=2.1e-16  Score=117.12  Aligned_cols=74  Identities=26%  Similarity=0.345  Sum_probs=69.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC----CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG----QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~----~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+|+++|+++|+.||.|.+|.|..+..    ..++|||+|.++++|+.|+. |||..|+|+.|.|..+
T Consensus         4 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   82 (88)
T 4a8x_A            4 PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAV   82 (88)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEEC
Confidence            47999999999999999999999999999999998863    57899999999999999995 9999999999999976

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

Probab=99.68  E-value=1.7e-16  Score=118.97  Aligned_cols=78  Identities=17%  Similarity=0.200  Sum_probs=71.1

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAENY   80 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~~   80 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|..+.+ .+++|||+|.++++|+.|+. |||..|+|+.|.|..+...
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~~   86 (92)
T 2dgv_A            7 GACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDRNA   86 (92)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECSCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCCC
Confidence            468999999999999999999999999999999998653 46899999999999999995 9999999999999986543

>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=99.67  E-value=3.6e-17  Score=123.31  Aligned_cols=75  Identities=17%  Similarity=0.227  Sum_probs=65.9

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCC--ceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSG--DIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG--~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .+|||+|||+.+|+++|+++|+.||  +|.+|+|..+..   .+|+|||+|.++++|+.|+ .|||..|+|+.|.|..+.
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            5899999999999999999999999  999999999852   4689999999999999999 699999999999998765


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        82 ~   82 (90)
T 3p5t_L           82 K   82 (90)
T ss_dssp             -
T ss_pred             C
Confidence            3

>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=99.67  E-value=2.7e-16  Score=121.97  Aligned_cols=76  Identities=21%  Similarity=0.260  Sum_probs=71.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|..+...+++|||+|+++++|+.|+ .|||..|.|+.|.|..+..
T Consensus        22 ~~~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           22 DCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRS   98 (109)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEccc
Confidence            579999999999999999999999999999999877667899999999999999999 7999999999999987654

>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=99.67  E-value=2.7e-16  Score=119.54  Aligned_cols=77  Identities=19%  Similarity=0.277  Sum_probs=71.0

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|..+.   ..+++|||+|.++++|+.|+ .|||..|.|+.|.|..+.
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            35899999999999999999999999999999999875   24689999999999999999 799999999999999875


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        87 ~   87 (99)
T 1whw_A           87 I   87 (99)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.67  E-value=6.2e-17  Score=117.26  Aligned_cols=72  Identities=17%  Similarity=0.248  Sum_probs=66.9

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      +|||+|||+.+++++|+++|+.||+|.+|.+..++   .++|+|||+|.++++++.|+.|||..|+|++|.|..+
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 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHSSSCCCSSSCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHCCCCEECCEEEEEEeC
Confidence            58999999999999999999999999999999875   2468999999999999999999999999999999753

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

Probab=99.67  E-value=3e-16  Score=119.15  Aligned_cols=77  Identities=22%  Similarity=0.300  Sum_probs=70.5

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC------CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEE
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG------QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSIT   75 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~------~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~   75 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|..+..      .+++|||+|.++++|+.|+. |||..|+|+.|.|.
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            568999999999999999999999999999999998653      35799999999999999995 99999999999999


Q ss_pred             eCCC
Q 024507           76 PAEN   79 (266)
Q Consensus        76 ~a~~   79 (266)
                      .+..
T Consensus        84 ~a~~   87 (98)
T 2cpf_A           84 ISER   87 (98)
T ss_dssp             CSSC
T ss_pred             EccC
Confidence            8754

>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=99.67  E-value=3.1e-16  Score=120.31  Aligned_cols=76  Identities=26%  Similarity=0.330  Sum_probs=70.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.|..+.. .+++|||+|.++++|+.|+. |||..|.|+.|.|..+..
T Consensus        15 ~~~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           15 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATT   92 (103)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECCC
Confidence            58999999999999999999999999999999998863 46899999999999999995 999999999999998654

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

Probab=99.66  E-value=4.6e-16  Score=121.51  Aligned_cols=81  Identities=19%  Similarity=0.217  Sum_probs=72.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+++++|+++|+.||.|.+|.|..+..   .+++|||+|.++++|+.|| .|||..|+|+.|.|..+.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   93 (115)
T 2dgo_A           14 NHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWAT   93 (115)
T ss_dssp             TCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            468999999999999999999999999999999998752   3689999999999999999 599999999999999986


Q ss_pred             CCCCC
Q 024507           79 NYVPK   83 (266)
Q Consensus        79 ~~~~~   83 (266)
                      .-..+
T Consensus        94 ~~~~~   98 (115)
T 2dgo_A           94 RKPPA   98 (115)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            54443

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

Probab=99.66  E-value=4.8e-16  Score=117.13  Aligned_cols=77  Identities=18%  Similarity=0.283  Sum_probs=70.9

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|..+.   ...++|||+|+++++|+.|+. |||..|+|+.|+|..+.
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            46899999999999999999999999999999999875   246899999999999999995 99999999999999864


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        84 ~   84 (95)
T 2dnz_A           84 E   84 (95)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.66  E-value=3.2e-16  Score=118.28  Aligned_cols=77  Identities=19%  Similarity=0.299  Sum_probs=70.7

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEE-EEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERI-EILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I-~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a   77 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+| .|..+.   ..+++|||+|+++++|+.|+. |||..|.|++|.|..+
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            46899999999999999999999999999999 998874   246899999999999999996 9999999999999986


Q ss_pred             CC
Q 024507           78 EN   79 (266)
Q Consensus        78 ~~   79 (266)
                      ..
T Consensus        84 ~~   85 (96)
T 1x5t_A           84 FK   85 (96)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

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

Probab=99.66  E-value=2.1e-16  Score=125.55  Aligned_cols=75  Identities=13%  Similarity=0.221  Sum_probs=69.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCc---eeEEEEEecCC--CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGD---IERIEILREYG--QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~---I~~I~l~~d~~--~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|++||+.||.   |.+|+|+.+..  .+|+|||+|.++++++.||.|||..|+|+.|.|..+.
T Consensus        17 ~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~~a~   96 (118)
T 2db1_A           17 GYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSH   96 (118)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGGGTTEEETTEEEEEEEEC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECC
Confidence            579999999999999999999999999   89999998763  4689999999999999999999999999999998763

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

Probab=99.66  E-value=3.8e-16  Score=117.45  Aligned_cols=75  Identities=21%  Similarity=0.279  Sum_probs=69.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.|..+..   .+++|||+|+++++|+.|+. |||..|+|+.|.|..+.
T Consensus        15 ~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   93 (95)
T 2cqc_A           15 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSGPS   93 (95)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCS
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecC
Confidence            57999999999999999999999999999999998863   36799999999999999995 99999999999998764

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

Probab=99.65  E-value=4.5e-16  Score=117.05  Aligned_cols=74  Identities=18%  Similarity=0.323  Sum_probs=68.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.|..+..   .+++|||+|.++++|+.|+ .|||..|.|+.|+|..+
T Consensus        16 ~~~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           16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASIA   93 (94)
T ss_dssp             TTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEEC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEec
Confidence            57999999999999999999999999999999998753   4689999999999999999 69999999999999864

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

Probab=99.65  E-value=6.6e-16  Score=118.44  Aligned_cols=77  Identities=25%  Similarity=0.369  Sum_probs=70.5

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|..+.   ..+++|||+|.++++|+.|+. |||..|+|+.|.|..+.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   93 (103)
T 2cq0_A           14 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAK   93 (103)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEECC
Confidence            46899999999999999999999999999999999875   246899999999999999995 99999999999999864


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        94 ~   94 (103)
T 2cq0_A           94 P   94 (103)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.65  E-value=4e-16  Score=119.64  Aligned_cols=77  Identities=22%  Similarity=0.266  Sum_probs=70.9

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|..+..   .+++|||+|.++++|+.|+. |||..|+|+.|.|..+.
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 (103)
T 2dnm_A           12 GMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVAR   91 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEECS
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEECC
Confidence            468999999999999999999999999999999998752   46899999999999999996 99999999999999875


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        92 ~   92 (103)
T 2dnm_A           92 Y   92 (103)
T ss_dssp             S
T ss_pred             c
Confidence            4

>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=99.65  E-value=4.7e-16  Score=119.65  Aligned_cols=75  Identities=23%  Similarity=0.289  Sum_probs=69.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC----CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG----QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~----~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|++||+.|| |.+|.|..+..    .+++|||+|.++++|+.||.|||..|.|+.|.|..+..
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~~   93 (104)
T 1wi8_A           15 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVADQ   93 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEECCC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHHhcCCCEeCCcEEEEEEccC
Confidence            57999999999999999999999999 99999998853    36899999999999999999999999999999998643

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

Probab=99.65  E-value=2.7e-16  Score=121.77  Aligned_cols=75  Identities=17%  Similarity=0.247  Sum_probs=67.7

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCc--eeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCC----eecCeeEEE
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGD--IERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGA----TIVDQIVSI   74 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~--I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~----~l~g~~I~V   74 (266)
                      .||||+|||+.+|+++|+++|+.||.  |.+|+|++|+.   ++|||||+|.++++|+.|+ .|||.    .|+||+|.|
T Consensus        10 ~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i~V   89 (95)
T 2lkz_A           10 DTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGV   89 (95)
T ss_dssp             CEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEEEE
Confidence            69999999999999999999999995  67999998862   4689999999999999999 69997    499999999


Q ss_pred             EeCCC
Q 024507           75 TPAEN   79 (266)
Q Consensus        75 ~~a~~   79 (266)
                      ..+.+
T Consensus        90 ~~Aks   94 (95)
T 2lkz_A           90 DFAKS   94 (95)
T ss_dssp             EECCC
T ss_pred             EEccC
Confidence            98754

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

Probab=99.65  E-value=6.9e-16  Score=118.33  Aligned_cols=77  Identities=22%  Similarity=0.332  Sum_probs=70.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|..+.+ ..++|||+|.++++|+.|+. |||..|.|+.|.|..+..
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~~   92 (103)
T 2d9p_A           14 QVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQR   92 (103)
T ss_dssp             SCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEecc
Confidence            468999999999999999999999999999999998743 36899999999999999995 999999999999998754

>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=2.5e-16  Score=122.48  Aligned_cols=75  Identities=20%  Similarity=0.162  Sum_probs=68.1

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      +.++|||+|||+.+||++|++||+.|| |.+|+|+.+.  ..+++|||+|+++++|+.||.+|+..|+||.|.|..+.
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~G-~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~~~   90 (102)
T 1wez_A           14 TGHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNS   90 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCSCC-CSEEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcC-ceEEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEECC
Confidence            357999999999999999999999999 5599999886  24689999999999999999999999999999998754

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

Probab=99.65  E-value=3.9e-16  Score=123.78  Aligned_cols=74  Identities=19%  Similarity=0.311  Sum_probs=68.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|++||+.| .|.+|.|+.+.  ..+|+|||+|+++++|+.||.|||..|+||.|.|.++.
T Consensus        16 ~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~a~   91 (109)
T 2dnn_A           16 DLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEVSPAT   91 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHHHTTTEEETTEEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECC
Confidence            4689999999999999999999999 89999999876  35789999999999999999999999999999998863

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

Probab=99.65  E-value=7.1e-16  Score=117.67  Aligned_cols=75  Identities=13%  Similarity=0.308  Sum_probs=69.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|..+.  ..+++|||+|.++++|+.|+ .|||..|+|+.|.|..+.
T Consensus        17 ~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   94 (100)
T 2do4_A           17 KHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAISN   94 (100)
T ss_dssp             CSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            5799999999999999999999999999999999886  23589999999999999999 799999999999998753

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

Probab=99.65  E-value=3.3e-16  Score=119.73  Aligned_cols=77  Identities=18%  Similarity=0.322  Sum_probs=70.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +.++|||+|||+.+|+++|+++|+.||+|.+|.|..+..   .+++|||+|.++++|+.|+ .|||..|+|+.|+|..+.
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 1x5s_A           11 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAG   90 (102)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            468999999999999999999999999999999998752   4689999999999999999 799999999999999864


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        91 ~   91 (102)
T 1x5s_A           91 K   91 (102)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.65  E-value=5.2e-16  Score=121.21  Aligned_cols=75  Identities=20%  Similarity=0.268  Sum_probs=70.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a   77 (266)
                      ..++|||+|||+.+|+++|+++|+.||.|.+|.|..++...++|||+|.++++|..|+. |||..|+|+.|.|..+
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   82 (115)
T 3lqv_A            7 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYY   82 (115)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEe
Confidence            35899999999999999999999999999999999887778999999999999999995 9999999999999875

>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=99.65  E-value=6.4e-16  Score=117.31  Aligned_cols=76  Identities=18%  Similarity=0.277  Sum_probs=70.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+++++|+++|+.||.|.+|.|..+.   ..+++|||+|.++++|+.|+ .|||..|+|+.|.|..+..
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            4799999999999999999999999999999999875   24789999999999999999 6999999999999998654

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

Probab=99.65  E-value=1e-15  Score=117.63  Aligned_cols=75  Identities=23%  Similarity=0.309  Sum_probs=69.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+++++|++||+.|| |.+|+|..+..   .+++|||+|+++++|+.||.|||..|.|+.|.|..+..
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-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLGDRSLRVDIAEG   92 (103)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHGGGTTCEETTEECEEEECCC
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHHhhCCCeECCeEEEEEEecC
Confidence            57999999999999999999999997 99999998863   36899999999999999999999999999999998653

>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=4.1e-16  Score=120.81  Aligned_cols=75  Identities=20%  Similarity=0.239  Sum_probs=68.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeE-EEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIER-IEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~-I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|++||+.||.|.+ |.|+.+.  ..+|+|||+|.++++|+.||.+||..|+||.|.|.++.
T Consensus        15 ~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~~~~~~~gr~i~v~~~~   92 (104)
T 1wg5_A           15 DGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSS   92 (104)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCcchhCCcEEEEEECC
Confidence            579999999999999999999999999997 9888774  34789999999999999999889999999999998764

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

Probab=99.65  E-value=3e-16  Score=120.94  Aligned_cols=74  Identities=11%  Similarity=0.139  Sum_probs=69.5

Q ss_pred             ccEEEEeCCCC------cccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecC-eeE
Q 024507            4 TRTVQVKNVSD------LAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVD-QIV   72 (266)
Q Consensus         4 ~~TV~V~NLs~------~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g-~~I   72 (266)
                      .++|||+|||+      .+++++|+++|+.||+|.+|+|+.+..   ++|+|||+|.++++|+.|+ .|||..|+| +.|
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            58999999999      999999999999999999999998873   4689999999999999999 599999999 999


Q ss_pred             EEEeC
Q 024507           73 SITPA   77 (266)
Q Consensus        73 ~V~~a   77 (266)
                      .|..+
T Consensus        86 ~V~~a   90 (100)
T 3ns6_A           86 FLYTM   90 (100)
T ss_dssp             EEEES
T ss_pred             EEEEC
Confidence            99875

>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=99.65  E-value=4.1e-16  Score=121.87  Aligned_cols=74  Identities=20%  Similarity=0.436  Sum_probs=69.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+++++|++||+.||.|.+|.|..+..   .+++|||+|.++++|+.||.|||..|+|+.|.|..+
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  101 (114)
T 2cq4_A           25 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQAS  101 (114)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHHHcCCCEeCCeEEEEEec
Confidence            47999999999999999999999999999999998763   468999999999999999999999999999999875

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

Probab=99.65  E-value=5.3e-16  Score=121.31  Aligned_cols=76  Identities=21%  Similarity=0.340  Sum_probs=70.3

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|..+.+ .+++|||+|.++++|+.|+. |||..|+|+.|.|..+.
T Consensus        28 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  105 (109)
T 2err_A           28 QPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT  105 (109)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            358999999999999999999999999999999998863 57899999999999999995 99999999999998764

>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=99.64  E-value=3e-16  Score=123.42  Aligned_cols=76  Identities=11%  Similarity=0.087  Sum_probs=70.1

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCce-eEEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDI-ERIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I-~~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      +.++|||+|||+.+|+++|++||+.||.| .+|.|+.+.  ..+++|||+|.++++|+.||.+||..|+|+.|.|..+.
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 AKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVT   92 (114)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEEEC
T ss_pred             CccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCCCccCCeEEEEEECC
Confidence            35899999999999999999999999999 899999876  24789999999999999999889999999999998864

>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=99.64  E-value=7.8e-16  Score=118.57  Aligned_cols=76  Identities=17%  Similarity=0.189  Sum_probs=69.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|..+.  ...++|||+|.++++|+.|+. |||..|.|+.|.|..+.
T Consensus        28 ~~~~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           28 TGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT  106 (107)
T ss_dssp             CSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeC
Confidence            35799999999999999999999999999999999886  236799999999999999995 99999999999998753

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

Probab=99.64  E-value=4.7e-16  Score=119.60  Aligned_cols=75  Identities=23%  Similarity=0.298  Sum_probs=69.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.|..+..   ..++|||+|.++++|+.|+. |||..|+|+.|.|..+.
T Consensus        23 ~~~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           23 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  101 (106)
T ss_dssp             BEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEeec
Confidence            57899999999999999999999999999999998853   36899999999999999995 99999999999998764

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

Probab=99.64  E-value=1.8e-16  Score=120.67  Aligned_cols=74  Identities=19%  Similarity=0.244  Sum_probs=66.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCC-ceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-h-cCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSG-DIERIEILREY---GQSKTAFVTFKDAKALEIALL-L-SGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG-~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-L-ng~~l~g~~I~V~~a   77 (266)
                      +++|||+|||+.+||++|+++|+.|| +|.+|+|++++   .++|+|||+|.++++|+.||. | |+..|+|++|.|..+
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            36999999999999999999999999 89999999875   357899999999999999994 5 556799999999865

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.64  E-value=3.2e-16  Score=120.61  Aligned_cols=76  Identities=17%  Similarity=0.263  Sum_probs=69.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.|..+..   .+++|||+|+++++|+.||.+||..|+|+.|.|..+..
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 IGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRPHTLDGRNIDPKPCTP   94 (105)
T ss_dssp             SSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHHCSEEETTEEEBCCCSCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEccC
Confidence            58999999999999999999999999999999999852   35899999999999999997799999999999987653

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

Probab=99.64  E-value=9.9e-16  Score=116.03  Aligned_cols=75  Identities=20%  Similarity=0.261  Sum_probs=65.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|  ..+....++|||+|.++++++.|+.|||..|+|+.|.|..+..
T Consensus         7 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~~g~~afV~f~~~~~a~~ai~l~g~~~~g~~l~V~~a~~   81 (94)
T 2e5g_A            7 GLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKDKGVFAIVEMGDVGAREAVLSQSQHSLGGHRLRVRPREQ   81 (94)
T ss_dssp             TCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSSSCCEEEEEESSHHHHHHHHTCSCCEETTEECCCBCSCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCCCCcEEEEEECCHHHHHHHHhcCCeEECCEEEEEEECCc
Confidence            35799999999999999999999999999998  3333222399999999999999999999999999999987643

>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=6.8e-16  Score=122.06  Aligned_cols=75  Identities=23%  Similarity=0.407  Sum_probs=70.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|++||+.||+|.+|.|..+.   ..+++|||+|.++++++.|+.|||..|+|+.|.|..+.
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a~  113 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKR  113 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHHTTTTCEETTEECEEEESS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECC
Confidence            4799999999999999999999999999999999874   24689999999999999999999999999999999865

>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=99.64  E-value=8.1e-16  Score=120.33  Aligned_cols=76  Identities=9%  Similarity=0.203  Sum_probs=70.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|+|..+..   .+++|||+|.++++|+.|+ .|||..|.|+.|+|..+..
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            47999999999999999999999999999999998762   3589999999999999999 7999999999999997643

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

Probab=99.64  E-value=5.9e-16  Score=118.29  Aligned_cols=76  Identities=22%  Similarity=0.360  Sum_probs=70.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|..+.   ...++|||+|.++++|+.|+ .|||..|+|+.|.|..+..
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            5899999999999999999999999999999998874   35789999999999999999 6999999999999998643

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

Probab=99.64  E-value=1.3e-15  Score=120.76  Aligned_cols=79  Identities=16%  Similarity=0.176  Sum_probs=71.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAENY   80 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~~   80 (266)
                      .++|||+||++.+++++|+++|+.||+|.+|.|..+.  ..+++|||+|.+.++|+.|+. |||..|+|+.|.|..+...
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            5799999999999999999999999999999999875  246899999999999999996 9999999999999987654


Q ss_pred             CC
Q 024507           81 VP   82 (266)
Q Consensus        81 ~~   82 (266)
                      ..
T Consensus       115 ~~  116 (124)
T 2kt5_A          115 ID  116 (124)
T ss_dssp             TC
T ss_pred             CC
Confidence            43

>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=99.64  E-value=6.6e-16  Score=118.58  Aligned_cols=75  Identities=16%  Similarity=0.258  Sum_probs=69.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|..+.   ..+++|||+|.++++|+.|+. |||..|+|+.|.|..+.
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   93 (105)
T 1x5u_A           15 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKAS   93 (105)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECC
Confidence            5899999999999999999999999999999999875   246899999999999999995 99999999999999864

>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=99.64  E-value=1.4e-16  Score=115.18  Aligned_cols=71  Identities=21%  Similarity=0.274  Sum_probs=66.4

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEe
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITP   76 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~   76 (266)
                      +|||+|||+.+|+++|+++|+.||+|.+|.+..+.   ..+++|||+|.++++++.|+.++|..|+|+.|.|..
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~v~~   74 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKV   74 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTTSSCCBTTBCCCEEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHhCCCeECCEEEEEEE
Confidence            68999999999999999999999999999998875   247899999999999999999999999999999875

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

Probab=99.63  E-value=9.7e-16  Score=115.02  Aligned_cols=75  Identities=17%  Similarity=0.259  Sum_probs=69.1

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|++||+.| .|.+|+|+.+.  ..+++|||+|.++++++.||.|||..|+|+.|.|..+.
T Consensus         9 ~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~~g~~~~gr~i~v~~a~   85 (91)
T 2dgw_A            9 TCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYIEVFREK   85 (91)
T ss_dssp             CCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHHSCSEEETTEEEEEEEES
T ss_pred             CccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHHhCCceeCCcEEEEEECC
Confidence            35899999999999999999999999 99999999884  24689999999999999999999999999999998864

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

Probab=99.63  E-value=1.6e-15  Score=113.75  Aligned_cols=72  Identities=22%  Similarity=0.311  Sum_probs=67.4

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|.     +++|||+|.++++|+.|+ .|||..|.|+.|.|..+..
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~-----~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   79 (90)
T 2dnq_A            7 GMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII-----KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKN   79 (90)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE-----TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSSC
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE-----CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECCC
Confidence            35899999999999999999999999999999998     579999999999999999 6999999999999998654

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

Probab=99.63  E-value=2.8e-16  Score=116.01  Aligned_cols=71  Identities=21%  Similarity=0.243  Sum_probs=64.7

Q ss_pred             ccEEEEeCCCCcc------cHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHHH-hcCCeecCe-eEEE
Q 024507            4 TRTVQVKNVSDLA------HEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIALL-LSGATIVDQ-IVSI   74 (266)
Q Consensus         4 ~~TV~V~NLs~~~------Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tALl-Lng~~l~g~-~I~V   74 (266)
                      .++|||+|||+.+      |+++|+++|+.||+|.+|.|.++.+ ++|+|||+|.++++|+.|+. |||..|+|+ +|+|
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            3799999999999      8899999999999999999985443 47899999999999999995 999999999 8876

>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=99.63  E-value=1.6e-15  Score=117.99  Aligned_cols=73  Identities=14%  Similarity=0.246  Sum_probs=68.2

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecC-----eeEEEEe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVD-----QIVSITP   76 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g-----~~I~V~~   76 (266)
                      ..++|||+|||+.+|+++|++||+.||+|.+|.|..+    ++|||+|.++++|+.||. |||..|.|     +.|.|..
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~----g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~   89 (108)
T 1x4c_A           14 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKV   89 (108)
T ss_dssp             CCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT----TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC----CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEe
Confidence            3579999999999999999999999999999999876    799999999999999995 99999999     9999998


Q ss_pred             CCC
Q 024507           77 AEN   79 (266)
Q Consensus        77 a~~   79 (266)
                      +..
T Consensus        90 a~~   92 (108)
T 1x4c_A           90 DGP   92 (108)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            754

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

Probab=99.63  E-value=9e-16  Score=116.66  Aligned_cols=77  Identities=18%  Similarity=0.263  Sum_probs=70.0

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCcee-EEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCee----EE
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIE-RIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQI----VS   73 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~-~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~----I~   73 (266)
                      ..++|||+|||+.+++++|+++|+.||+|. +|+|..+..   ..++|||+|.++++|+.|+. |||..|.|+.    |+
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            358999999999999999999999999999 999998862   45899999999999999996 9999999999    99


Q ss_pred             EEeCCC
Q 024507           74 ITPAEN   79 (266)
Q Consensus        74 V~~a~~   79 (266)
                      |..+..
T Consensus        88 v~~a~~   93 (99)
T 2div_A           88 LNYATY   93 (99)
T ss_dssp             EEETTC
T ss_pred             EeecCC
Confidence            987643

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

Probab=99.63  E-value=1.7e-15  Score=117.84  Aligned_cols=76  Identities=24%  Similarity=0.322  Sum_probs=70.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.|..+..  .+++|||+|.++++|+.|+. |||..|+|+.|.|..+..
T Consensus        15 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   93 (114)
T 2do0_A           15 GSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDER   93 (114)
T ss_dssp             CSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEccc
Confidence            57999999999999999999999999999999998763  36899999999999999995 999999999999998654

>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=99.63  E-value=6.3e-16  Score=121.06  Aligned_cols=76  Identities=20%  Similarity=0.269  Sum_probs=69.2

Q ss_pred             CccEEEEeCCCCcccHHHHH---HHcccCCceeEEEEEecCC------CCcEEEEEecChHHHHHHHH-hcCCeecCeeE
Q 024507            3 QTRTVQVKNVSDLAHEREIH---EFFSFSGDIERIEILREYG------QSKTAFVTFKDAKALEIALL-LSGATIVDQIV   72 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~---efFs~cG~I~~I~l~~d~~------~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I   72 (266)
                      ..++|||+|||+.+++++|+   ++|+.||+|.+|.|..+..      .+++|||+|+++++|+.|+. |||..|+|+.|
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   9999999999999988753      24799999999999999995 89999999999


Q ss_pred             EEEeCC
Q 024507           73 SITPAE   78 (266)
Q Consensus        73 ~V~~a~   78 (266)
                      .|..+.
T Consensus        94 ~V~~a~   99 (111)
T 2cpi_A           94 KASLGT   99 (111)
T ss_dssp             EEESCC
T ss_pred             EEEecc
Confidence            998764

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

Probab=99.63  E-value=9.9e-16  Score=116.85  Aligned_cols=74  Identities=18%  Similarity=0.313  Sum_probs=68.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeE--------EEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCee
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIER--------IEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQI   71 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~--------I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~   71 (266)
                      .++|||+|||+.+|+++|+++|+.||.|.+        |+|..+..   .+|+|||+|.++++++.|+ .|||..|+|+.
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            579999999999999999999999999999        99998852   3689999999999999999 59999999999


Q ss_pred             EEEEeC
Q 024507           72 VSITPA   77 (266)
Q Consensus        72 I~V~~a   77 (266)
                      |+|..+
T Consensus        93 l~V~~A   98 (99)
T 2la6_A           93 IKVSFA   98 (99)
T ss_dssp             CEEEEC
T ss_pred             EEEEec
Confidence            999865

>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=99.63  E-value=1.8e-15  Score=116.11  Aligned_cols=76  Identities=21%  Similarity=0.317  Sum_probs=69.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHH-HhcCCeecC---eeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIAL-LLSGATIVD---QIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tAL-lLng~~l~g---~~I~V~~a   77 (266)
                      .++|||+|||+.+++++|+++|+.||.|.+|.|..+..  .+++|||+|.++++|+.|+ .|||..|.|   +.|.|..+
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            58999999999999999999999999999999998862  3689999999999999999 599999998   99999986


Q ss_pred             CC
Q 024507           78 EN   79 (266)
Q Consensus        78 ~~   79 (266)
                      ..
T Consensus        95 ~~   96 (105)
T 2dnh_A           95 DT   96 (105)
T ss_dssp             CS
T ss_pred             cc
Confidence            53

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.63  E-value=8.7e-16  Score=120.45  Aligned_cols=74  Identities=9%  Similarity=0.197  Sum_probs=68.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|+|..+.   ..+++|||+|.++++++.|+. |||..|+|+.|+|..+
T Consensus        40 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a  117 (118)
T 2khc_A           40 GCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQLK  117 (118)
T ss_dssp             SEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            5899999999999999999999999999999999875   347899999999999999995 9999999999999864

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

Probab=99.63  E-value=1.9e-15  Score=118.40  Aligned_cols=76  Identities=20%  Similarity=0.180  Sum_probs=69.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|+|..+.   ..+++|||+|.++++|+.||. ||+ .|.|+.|.|..+..
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            5899999999999999999999999999999999875   246899999999999999994 777 99999999998764


Q ss_pred             C
Q 024507           80 Y   80 (266)
Q Consensus        80 ~   80 (266)
                      .
T Consensus        96 ~   96 (116)
T 2cqd_A           96 G   96 (116)
T ss_dssp             T
T ss_pred             C
Confidence            3

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

Probab=99.63  E-value=8.1e-16  Score=119.31  Aligned_cols=77  Identities=19%  Similarity=0.237  Sum_probs=69.7

Q ss_pred             ccEEEEeCCCCcc------cHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHHH-hcCCeecCe-eEEE
Q 024507            4 TRTVQVKNVSDLA------HEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIALL-LSGATIVDQ-IVSI   74 (266)
Q Consensus         4 ~~TV~V~NLs~~~------Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tALl-Lng~~l~g~-~I~V   74 (266)
                      .++|||+|||+.+      |+++|+++|+.||+|.+|.|.+..+ ++|+|||+|.++++|..|+. |||..|+|+ .|.|
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            5799999999999      8999999999999999999985443 47899999999999999995 999999999 9999


Q ss_pred             EeCCCC
Q 024507           75 TPAENY   80 (266)
Q Consensus        75 ~~a~~~   80 (266)
                      ..+.+.
T Consensus        95 ~~a~~~  100 (105)
T 2nlw_A           95 NLFTDF  100 (105)
T ss_dssp             ECSCCC
T ss_pred             EEcchH
Confidence            987654

>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=99.63  E-value=2.4e-16  Score=122.68  Aligned_cols=76  Identities=12%  Similarity=0.121  Sum_probs=70.0

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCc---eeEEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGD---IERIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~---I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      +.++|||+|||+.+|+++|++||+.||.   |.+|+|..+.  ..+|+|||+|.++++++.||.|||..|+|+.|.|..+
T Consensus        10 ~~~~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           10 DVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALEKHRMYMGQRYVEVYEI   89 (107)
T ss_dssp             SCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHTTTTCCSSSSCCCCEEC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCcceeCCeEEEEEEC
Confidence            4589999999999999999999999998   9999999876  3578999999999999999999999999999999875


Q ss_pred             C
Q 024507           78 E   78 (266)
Q Consensus        78 ~   78 (266)
                      .
T Consensus        90 ~   90 (107)
T 2lmi_A           90 N   90 (107)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.62  E-value=1.1e-15  Score=119.69  Aligned_cols=76  Identities=20%  Similarity=0.281  Sum_probs=69.9

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|..+..   .+|+|||+|.++++|+.|+ .|||..|+|+.|+|..+.
T Consensus        25 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~  104 (108)
T 2jrs_A           25 GPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVT  104 (108)
T ss_dssp             SCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEECSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcc
Confidence            358999999999999999999999999999999998853   3689999999999999999 599999999999998754

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.62  E-value=1.7e-15  Score=118.55  Aligned_cols=75  Identities=17%  Similarity=0.241  Sum_probs=68.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|+|..+.   ..+|+|||+|.++++++.|+..+|..|+|+.|.|..+.
T Consensus        25 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~g~~l~V~~a~  102 (109)
T 2rs2_A           25 GCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVAF  102 (109)
T ss_dssp             -CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSSCEEETTEEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEcc
Confidence            5899999999999999999999999999999999875   34789999999999999999877899999999998864

>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=99.62  E-value=1.2e-15  Score=118.30  Aligned_cols=76  Identities=25%  Similarity=0.264  Sum_probs=69.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|..+.   ...++|||+|.++++|+.|+. |||..|+|+.|.|..+.
T Consensus        25 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  104 (110)
T 1oo0_B           25 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF  104 (110)
T ss_dssp             TBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEcc
Confidence            35789999999999999999999999999999998875   246899999999999999995 99999999999998753

>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=99.62  E-value=1.7e-15  Score=117.19  Aligned_cols=77  Identities=21%  Similarity=0.283  Sum_probs=70.3

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-Hhc------CCeecCeeE
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLS------GATIVDQIV   72 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLn------g~~l~g~~I   72 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|..+..   .+++|||+|.+.++|+.|+ .||      |..|+|+.|
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~l   93 (111)
T 1x4h_A           14 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQL   93 (111)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEEE
Confidence            357999999999999999999999999999999998752   5789999999999999999 599      999999999


Q ss_pred             EEEeCCC
Q 024507           73 SITPAEN   79 (266)
Q Consensus        73 ~V~~a~~   79 (266)
                      .|..+..
T Consensus        94 ~v~~a~~  100 (111)
T 1x4h_A           94 KVDLAVT  100 (111)
T ss_dssp             EEECCCC
T ss_pred             EEEECCC
Confidence            9987643

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

Probab=99.62  E-value=1.6e-15  Score=116.65  Aligned_cols=76  Identities=22%  Similarity=0.370  Sum_probs=69.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEec-C---CCCcEEEEEecChHHHHHHH-Hh-cCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILRE-Y---GQSKTAFVTFKDAKALEIAL-LL-SGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d-~---~~~~~AyVtF~~~~aa~tAL-lL-ng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|..+ .   ..+++|||+|.++++|+.|+ .| ||..|.|+.|.|..+
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            579999999999999999999999999999999887 3   24789999999999999999 58 999999999999986


Q ss_pred             CC
Q 024507           78 EN   79 (266)
Q Consensus        78 ~~   79 (266)
                      ..
T Consensus        95 ~~   96 (107)
T 2cph_A           95 DS   96 (107)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.62  E-value=6e-16  Score=116.59  Aligned_cols=75  Identities=20%  Similarity=0.218  Sum_probs=68.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|++||+.||.|.++.++.++.   .+++|||+|.++++|+.|+. |||..|+|+.|+|..+.
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            47999999999999999999999999999988887653   36899999999999999995 99999999999998753

>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=99.62  E-value=1.7e-15  Score=119.99  Aligned_cols=77  Identities=14%  Similarity=0.320  Sum_probs=70.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+|+++|+++|+.||.|.+|.|..+.  ...++|||+|.+.++|+.|+ .|||..|+|+.|.|..+..
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   85 (116)
T 2fy1_A            6 HPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAKK   85 (116)
T ss_dssp             SCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            35899999999999999999999999999999999875  34689999999999999999 5999999999999998754

>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=99.62  E-value=1.8e-16  Score=118.53  Aligned_cols=77  Identities=18%  Similarity=0.315  Sum_probs=67.2

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAENY   80 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~~   80 (266)
                      ++|||+|||+.+++++|+++|+.||+|.+|.|..+.   ..+++|||+|.+++ +..|+ .|||..|+|+.|.|..+...
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            689999999999999999999999999999999875   34789999999999 99998 49999999999999987553


Q ss_pred             CC
Q 024507           81 VP   82 (266)
Q Consensus        81 ~~   82 (266)
                      ..
T Consensus        81 ~~   82 (90)
T 2ki2_A           81 KS   82 (90)
T ss_dssp             --
T ss_pred             CC
Confidence            33

>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=99.62  E-value=1.5e-15  Score=116.82  Aligned_cols=74  Identities=23%  Similarity=0.394  Sum_probs=68.4

Q ss_pred             CCCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            1 MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         1 M~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      |...++|||+|||+.+|+++|+++|+.||+|.+|.|.     +++|||+|.++++|+.|+. |||..|.|+.|.|..+..
T Consensus         8 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~-----~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   82 (103)
T 2dgu_A            8 MAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL-----KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKP   82 (103)
T ss_dssp             CCCCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC-----SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE-----CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcCC
Confidence            4556899999999999999999999999999999997     4599999999999999995 999999999999998754

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.62  E-value=2.1e-15  Score=118.16  Aligned_cols=76  Identities=17%  Similarity=0.263  Sum_probs=69.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||.|.+|.|..+..   .+++|||+|.++++|+.||.+||..|+|+.|.|..+..
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 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAVA  105 (116)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECCSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHhCCcEECCEEEEEEECCC
Confidence            47999999999999999999999999999999998752   46899999999999999998899999999999987643

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.62  E-value=3.4e-16  Score=115.94  Aligned_cols=74  Identities=12%  Similarity=0.196  Sum_probs=67.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITP   76 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~   76 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|..+.   ..+++|||+|.++++|+.|+. |||..|.|+.|+|..
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~   81 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSG   81 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecC
Confidence            46899999999999999999999999999999999875   246899999999999999995 999999999988754

>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=99.62  E-value=6.5e-16  Score=127.21  Aligned_cols=74  Identities=14%  Similarity=0.190  Sum_probs=69.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCc---eeEEEEEecCC--CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGD---IERIEILREYG--QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~---I~~I~l~~d~~--~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+++|+++|++||+.||.   |.+|+|+.+..  ++|+|||+|.++++|+.||.|||..|+||.|.|..+
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 GFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVFKS  122 (136)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHTTTEEESSSSEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCEECCEEEEEEEC
Confidence            579999999999999999999999999   89999998763  468999999999999999999999999999999875

>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=99.61  E-value=1.7e-15  Score=115.50  Aligned_cols=74  Identities=19%  Similarity=0.231  Sum_probs=68.7

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|..+   +++|||+|.++++|+.|+ .|||..|.|+.|.|..+..
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~---kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   88 (99)
T 2cpj_A           14 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD---KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACH   88 (99)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT---TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecC---CCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcCC
Confidence            4579999999999999999999999999999999855   679999999999999999 7999999999999998643

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

Probab=99.61  E-value=2e-15  Score=113.28  Aligned_cols=72  Identities=19%  Similarity=0.365  Sum_probs=66.9

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+|+++|+++|+.||.|.+|.|.+     ++|||+|.++++|+.|+. |||..|+|+.|.|..+..
T Consensus         8 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~-----~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   80 (90)
T 2dnp_A            8 NTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVK-----DYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTK   80 (90)
T ss_dssp             CSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECS-----SCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEEC-----CEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECCC
Confidence            358999999999999999999999999999999983     499999999999999995 999999999999998754

>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=99.61  E-value=1.4e-15  Score=116.34  Aligned_cols=75  Identities=20%  Similarity=0.319  Sum_probs=69.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+++|+.||.|.+|.|..+..   .+++|||+|.++++|+.|+ .|||..|.|+.|.|..+.
T Consensus         8 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   86 (104)
T 1p1t_A            8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAA   86 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETT
T ss_pred             ccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCC
Confidence            47999999999999999999999999999999998853   3689999999999999999 599999999999999864

>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=99.61  E-value=2.9e-15  Score=123.29  Aligned_cols=80  Identities=26%  Similarity=0.332  Sum_probs=72.6

Q ss_pred             CCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeC
Q 024507            2 QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPA   77 (266)
Q Consensus         2 ~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a   77 (266)
                      ...++|||+|||+.+|+++|+++|+.||+|.+|.|+.+..   ..++|||+|.++++|+.||. |||..|+|+.|.|..+
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  116 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD  116 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            3468999999999999999999999999999999998863   45899999999999999996 9999999999999988


Q ss_pred             CCCC
Q 024507           78 ENYV   81 (266)
Q Consensus        78 ~~~~   81 (266)
                      ....
T Consensus       117 ~~~~  120 (156)
T 1h2v_Z          117 AGFK  120 (156)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            6533

>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=99.61  E-value=4.2e-16  Score=124.10  Aligned_cols=76  Identities=16%  Similarity=0.206  Sum_probs=67.1

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|++||+.||.|.++.++.+.   ..+|+|||+|.++++|+.||.|||..|+|+.|.|..+.
T Consensus        24 ~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~~a~  102 (124)
T 1wel_A           24 AGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPIT  102 (124)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEECC
Confidence            35799999999999999999999999999985554443   24689999999999999999999999999999998763

>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=99.61  E-value=1.6e-15  Score=112.35  Aligned_cols=71  Identities=21%  Similarity=0.356  Sum_probs=66.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccC----C-------ceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCee
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFS----G-------DIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQI   71 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~c----G-------~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~   71 (266)
                      ..++|||+|||+.+++++|+++|+.|    |       +|.++++..+   +++|||+|.++++|+.|+.|||..|.|+.
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~---kg~afV~f~~~~~a~~A~~l~g~~~~g~~   81 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD---KNFAFLEFRSVDETTQAMAFDGIIFQGQS   81 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS---SSEEEEEESSHHHHHHHGGGTTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC---CcEEEEEcCCHHHHHHHHhcCCCEECCeE
Confidence            35899999999999999999999999    8       9999999865   68999999999999999999999999999


Q ss_pred             EEEEe
Q 024507           72 VSITP   76 (266)
Q Consensus        72 I~V~~   76 (266)
                      |.|.+
T Consensus        82 l~V~r   86 (87)
T 2hzc_A           82 LKIRR   86 (87)
T ss_dssp             CEEEC
T ss_pred             EEEeC
Confidence            99975

>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=99.61  E-value=2.2e-15  Score=111.27  Aligned_cols=71  Identities=20%  Similarity=0.321  Sum_probs=66.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-h-cCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-L-SGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-L-ng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.+..+   +++|||+|.++++|+.|+. | ||..|+|+.|.|..+
T Consensus        12 ~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~---kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~a   84 (85)
T 2ytc_A           12 ITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR---QQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWG   84 (85)
T ss_dssp             CCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGG---GTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEEC
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECC---CCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEec
Confidence            579999999999999999999999999999999975   6799999999999999995 7 999999999999864

>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=99.61  E-value=6.2e-16  Score=118.81  Aligned_cols=74  Identities=23%  Similarity=0.284  Sum_probs=68.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC----CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY----GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~----~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|++||+.|| |.+|+|..+.    ..+|+|||+|.+.+++..|+.|||..|+|+.|.|..+.
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-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNRRIRVDVAD   96 (100)
T ss_dssp             -CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTTCCBTTBCCCCEECC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHHhcCCCEECCeEEEEEecc
Confidence            58999999999999999999999999 9999999875    24689999999999999999999999999999998764

>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=99.61  E-value=3e-15  Score=116.23  Aligned_cols=73  Identities=22%  Similarity=0.289  Sum_probs=68.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.|..+   +++|||+|.++++|+.|+ .|||..|.|+.|.|..+..
T Consensus        25 ~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~---~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   98 (109)
T 1x4g_A           25 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE---KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKE   98 (109)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT---TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC---CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecCC
Confidence            579999999999999999999999999999999976   689999999999999999 7999999999999997644

>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=99.61  E-value=1.2e-15  Score=117.32  Aligned_cols=76  Identities=16%  Similarity=0.307  Sum_probs=69.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCee---cCeeEEEEe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATI---VDQIVSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l---~g~~I~V~~   76 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|..+..   .+++|||+|.++++|+.|+ .|||..+   .|+.|.|..
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            57999999999999999999999999999999998753   5789999999999999999 5999998   899999998


Q ss_pred             CCC
Q 024507           77 AEN   79 (266)
Q Consensus        77 a~~   79 (266)
                      +..
T Consensus        93 a~~   95 (106)
T 2dgp_A           93 ADS   95 (106)
T ss_dssp             CCC
T ss_pred             CCc
Confidence            643

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

Probab=99.61  E-value=1e-15  Score=122.02  Aligned_cols=74  Identities=11%  Similarity=0.168  Sum_probs=68.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCC-ceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSG-DIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG-~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+++|+.|| +|..+.+..+ ..+|+|||+|+++++|+.|+ .|||..|+|+.|.|..+.
T Consensus        28 ~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~-~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a~  103 (111)
T 2jvr_A           28 RYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTR-DFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDD  103 (111)
T ss_dssp             CEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSC-SSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEESC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcC-CCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECC
Confidence            46899999999999999999999999 9999999643 35789999999999999999 599999999999999864

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

Probab=99.61  E-value=9.7e-16  Score=117.10  Aligned_cols=73  Identities=29%  Similarity=0.377  Sum_probs=68.8

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      ++|||+|||+.+|+++|+++|+.||+|.+|.|..+  .+++|||+|.++++|+.|+. |||..|+|+.|.|..+..
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~--~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   74 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN--PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTG   74 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS--SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC--CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccC
Confidence            58999999999999999999999999999999987  67899999999999999995 999999999999998754

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

Probab=99.61  E-value=8.9e-16  Score=111.22  Aligned_cols=72  Identities=17%  Similarity=0.265  Sum_probs=65.9

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a   77 (266)
                      ++|||+|||+.+++++|+++|+.||+|.+|.+..++   .++|+|||+|.++++++.|+. +| ..|+|+.|.|..+
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            589999999999999999999999999999999875   246899999999999999996 55 9999999999864

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

Probab=99.61  E-value=2.6e-15  Score=116.86  Aligned_cols=77  Identities=17%  Similarity=0.311  Sum_probs=69.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCcee--------EEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIE--------RIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQ   70 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~--------~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~   70 (266)
                      ..++|||+|||+.+|+++|+++|+.||.|.        .|+|..+.   ..+++|||+|.++++|+.||. |||..|.|+
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            358999999999999999999999999999        69999874   246899999999999999995 999999999


Q ss_pred             eEEEEeCCC
Q 024507           71 IVSITPAEN   79 (266)
Q Consensus        71 ~I~V~~a~~   79 (266)
                      .|.|..+..
T Consensus        94 ~l~V~~a~~  102 (113)
T 2cpe_A           94 KLKVSLARK  102 (113)
T ss_dssp             ECEEECSSC
T ss_pred             EEEEEECCC
Confidence            999998654

>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=99.61  E-value=1.1e-15  Score=116.00  Aligned_cols=75  Identities=20%  Similarity=0.177  Sum_probs=68.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|++||+.||.|.++.++.++.   .+++|||+|.++++|+.|+ .|||..|+|+.|+|..+.
T Consensus        15 ~~~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           15 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGS   93 (98)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcC
Confidence            47899999999999999999999999999888887653   3689999999999999999 799999999999999754

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

Probab=99.60  E-value=2.2e-15  Score=125.99  Aligned_cols=75  Identities=19%  Similarity=0.261  Sum_probs=68.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCC--ceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSG--DIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG--~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .++|||+||++.+|+++|+++|+.||  +|.+|.|..+..   .+|||||+|.++++|+.|| .|||..|+|+.|.|..+
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            47999999999999999999999999  999999998852   4689999999999999999 58999999999999876


Q ss_pred             C
Q 024507           78 E   78 (266)
Q Consensus        78 ~   78 (266)
                      .
T Consensus       135 ~  135 (156)
T 3n9u_C          135 T  135 (156)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.60  E-value=4.3e-15  Score=111.89  Aligned_cols=72  Identities=18%  Similarity=0.259  Sum_probs=66.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.+.     .++|||+|+++++|+.|+ .|||..|.|+.|.|..+..
T Consensus         9 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~-----~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   81 (92)
T 2dgt_A            9 ASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV-----KDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLSTS   81 (92)
T ss_dssp             SSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEEC-----SSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEE-----CCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccC
Confidence            35899999999999999999999999999999997     349999999999999999 6999999999999998753

>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=99.60  E-value=4.8e-15  Score=113.60  Aligned_cols=76  Identities=14%  Similarity=0.234  Sum_probs=68.9

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.|..+..   .+++|||+|.++++|+.||. ++..|+|+.|.|..+..
T Consensus        14 ~~~~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           14 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMIDGRWCDCKLPNS   92 (103)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEETTEEEEEECCCT
T ss_pred             CCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH-cCCeeCCeEEEEEecCC
Confidence            357899999999999999999999999999999998852   36899999999999999998 68899999999998654

>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=99.60  E-value=2.4e-15  Score=123.36  Aligned_cols=77  Identities=21%  Similarity=0.294  Sum_probs=70.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|..+.   ..+|+|||+|.++++++.|| .|||..|.|++|.|..+..
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            5799999999999999999999999999999999874   35789999999999999999 5999999999999998764


Q ss_pred             C
Q 024507           80 Y   80 (266)
Q Consensus        80 ~   80 (266)
                      .
T Consensus       150 ~  150 (158)
T 2kn4_A          150 G  150 (158)
T ss_dssp             S
T ss_pred             C
Confidence            3

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

Probab=99.60  E-value=2.3e-15  Score=115.04  Aligned_cols=71  Identities=13%  Similarity=0.206  Sum_probs=66.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+++++|+++|+.||.|.+|++..   .+++|||+|.+.++|..|+ .|||..|+|+.|+|..+
T Consensus        27 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~---~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   98 (101)
T 2la4_A           27 VTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYP---EKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWG   98 (101)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEET---TTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBC
T ss_pred             CCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEec---CCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEec
Confidence            57999999999999999999999999999999983   4789999999999999999 69999999999999765

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

Probab=99.60  E-value=3.8e-15  Score=119.93  Aligned_cols=77  Identities=21%  Similarity=0.368  Sum_probs=70.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+||++.+++++|+++|+.||+|.+|.|..+..   .+++|||+|.++++|+.|+. |||..|.|+.|.|..+..
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            48999999999999999999999999999999998863   36899999999999999995 999999999999998754


Q ss_pred             C
Q 024507           80 Y   80 (266)
Q Consensus        80 ~   80 (266)
                      -
T Consensus       122 ~  122 (139)
T 1u6f_A          122 G  122 (139)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.60  E-value=1.8e-15  Score=120.15  Aligned_cols=72  Identities=14%  Similarity=0.220  Sum_probs=66.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hc--CCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LS--GATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Ln--g~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+||++|+++|+.||+|.+|.|+++   +|+|||+|+++++|+.|+. |+  |..|.|++|.|..+.
T Consensus        16 ~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~---kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A~   90 (105)
T 1sjq_A           16 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG---KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSN   90 (105)
T ss_dssp             CCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT---TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC---CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcC
Confidence            579999999999999999999999999999999975   6899999999999999995 65  489999999998764

>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=99.60  E-value=2.3e-15  Score=119.33  Aligned_cols=77  Identities=22%  Similarity=0.269  Sum_probs=70.4

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|+++|+.||.|.+|.|..+.   ...++|||+|.++++|+.|+ .|||..|+|+.|.|..+.
T Consensus        21 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  100 (126)
T 3ex7_B           21 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWCF  100 (126)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEESE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEec
Confidence            45799999999999999999999999999999999875   24689999999999999999 599999999999999874


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus       101 ~  101 (126)
T 3ex7_B          101 V  101 (126)
T ss_dssp             E
T ss_pred             C
Confidence            3

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

Probab=99.60  E-value=7e-15  Score=112.10  Aligned_cols=73  Identities=23%  Similarity=0.332  Sum_probs=67.1

Q ss_pred             CCccEEEEeCCCCcccHHHHHHHcccC--CceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            2 QQTRTVQVKNVSDLAHEREIHEFFSFS--GDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         2 ~~~~TV~V~NLs~~~Te~dL~efFs~c--G~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      ...++|||+|||+.+|+++|+++|+.|  |.|.+|.+.     +++|||+|.++++|..|+. |||..|.|+.|.|..+.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~-----~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   87 (99)
T 2cpd_A           13 SSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI-----RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK   87 (99)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC-----SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCC
T ss_pred             CCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe-----CCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            456899999999999999999999999  999999885     5699999999999999996 99999999999999764


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        88 ~   88 (99)
T 2cpd_A           88 P   88 (99)
T ss_dssp             C
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=99.60  E-value=3e-15  Score=113.75  Aligned_cols=72  Identities=17%  Similarity=0.236  Sum_probs=67.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeec--CeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIV--DQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~--g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.+..+   +++|||+|.++++|+.|+. |||..|.  |+.|.|..+.
T Consensus        17 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~---~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a~   91 (97)
T 1why_A           17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG---DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAK   91 (97)
T ss_dssp             CSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS---SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC---CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEECC
Confidence            479999999999999999999999999999999865   6799999999999999995 9999999  9999999754

>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=99.59  E-value=7.3e-15  Score=112.72  Aligned_cols=71  Identities=15%  Similarity=0.223  Sum_probs=66.4

Q ss_pred             CccEEEEeCCCC-cccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSD-LAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~-~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      +.++|||+|||+ .+++++|+++|+.||.|.+|+|.     +++|||+|.+.++|..|+. |||..|+|+.|.|..+.
T Consensus        21 ~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~-----~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   93 (97)
T 2xnq_A           21 MKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK-----NAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSS   93 (97)
T ss_dssp             TTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC-----SSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEECC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe-----CCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEecC
Confidence            468999999998 99999999999999999999994     7899999999999999995 99999999999998753

>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=99.59  E-value=1.7e-15  Score=114.44  Aligned_cols=75  Identities=27%  Similarity=0.372  Sum_probs=68.6

Q ss_pred             ccEEEEeCCCCcccHHHHH----HHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIH----EFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~----efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+    ++|+.||.|.+|.+...+..+++|||+|.++++|..|+ .|||..|.|+.|.|..+.
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    99999999999999854445789999999999999999 599999999999998754

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

Probab=99.59  E-value=2.6e-15  Score=116.52  Aligned_cols=72  Identities=8%  Similarity=0.121  Sum_probs=67.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ++..|+|+||++.+||++|+++|+.+|+|.++.+..   ++|||||+|.++++|+.|+ .|||..|.||+|+|..+
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~---~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A   78 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL---NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESP   78 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET---TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECC
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC---CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEEC
Confidence            567899999999999999999999999999999976   4889999999999999999 69999999999999875

>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=99.59  E-value=2.4e-15  Score=118.26  Aligned_cols=73  Identities=22%  Similarity=0.179  Sum_probs=67.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||.|.+|.|..   .+++|||+|.++++|+.|+ .|||..|+|++|.|..+..
T Consensus        10 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~---~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   83 (111)
T 1whx_A           10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE---GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPI   83 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS---SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC---CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            47999999999999999999999999999999975   3679999999999999999 5999999999999988754

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

Probab=99.59  E-value=3.5e-15  Score=119.36  Aligned_cols=73  Identities=22%  Similarity=0.362  Sum_probs=68.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|+|..+.   ..+++|||+|.++++|+.|+ .|||..|+|+.|+|..
T Consensus        63 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  139 (140)
T 2ku7_A           63 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL  139 (140)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEEC
T ss_pred             CcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            5899999999999999999999999999999999874   35789999999999999999 6999999999999975

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

Probab=99.59  E-value=3.5e-15  Score=114.32  Aligned_cols=75  Identities=19%  Similarity=0.183  Sum_probs=69.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHccc-CCceeEEEEEecC--CCCcEEEEEecChHHHHHHHH-hcCCe-ecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSF-SGDIERIEILREY--GQSKTAFVTFKDAKALEIALL-LSGAT-IVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~-cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALl-Lng~~-l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+. ||.|.+|.|..+.  ..+++|||+|.++++|+.|+. |||.. |+|+.|.|..+.
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            579999999999999999999999 9999999999885  246899999999999999995 99999 999999998764

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

Probab=99.59  E-value=3.1e-15  Score=113.08  Aligned_cols=75  Identities=16%  Similarity=0.223  Sum_probs=67.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEE-EEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIE-ILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~-l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|+ |..+.. .+.|||+|.+++++..|+. |||..|+|+.|.|..+..
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~-~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~   91 (96)
T 2e44_A           15 IRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSE-TAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPD   91 (96)
T ss_dssp             CCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSS-SEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECCC
T ss_pred             CCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCC-CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCc
Confidence            57999999999999999999999999999995 776654 3449999999999999995 999999999999998643

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

Probab=99.58  E-value=4e-15  Score=113.28  Aligned_cols=73  Identities=19%  Similarity=0.318  Sum_probs=66.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||.|. +.+..+ ..+++|||+|.++++|+.|+ .|||..|+|+.|.|..+.
T Consensus        19 ~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   92 (97)
T 2e5j_A           19 AADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQ-GPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALAR   92 (97)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEE-TTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECC
T ss_pred             CCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcC-CCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            58999999999999999999999999997 677665 45789999999999999999 699999999999998764

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.58  E-value=1.3e-15  Score=123.35  Aligned_cols=75  Identities=19%  Similarity=0.178  Sum_probs=68.0

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCce----eEEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDI----ERIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITP   76 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I----~~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~   76 (266)
                      +.++|||+|||+.+|+++|++||+.||+|    .+|.|+.+.  .++|+|||+|+++++|+.||.+||..|+||.|.|.+
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~~  101 (123)
T 2dha_A           22 NQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYIELFR  101 (123)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTTTTEESSSCEECCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            35799999999999999999999999875    799999875  246899999999999999998899999999999987


Q ss_pred             C
Q 024507           77 A   77 (266)
Q Consensus        77 a   77 (266)
                      +
T Consensus       102 a  102 (123)
T 2dha_A          102 S  102 (123)
T ss_dssp             E
T ss_pred             C
Confidence            5

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

Probab=99.58  E-value=6.9e-15  Score=115.27  Aligned_cols=70  Identities=23%  Similarity=0.377  Sum_probs=66.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|.     +++|||+|.+.++|+.|+ .|||..|+|+.|.|..+.
T Consensus        31 ~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~-----kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  101 (108)
T 2jvo_A           31 NTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL-----NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSK  101 (108)
T ss_dssp             CSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE-----TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESCS
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE-----CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEec
Confidence            5899999999999999999999999999999998     689999999999999999 599999999999998754

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

Probab=99.58  E-value=6.3e-15  Score=118.78  Aligned_cols=76  Identities=29%  Similarity=0.436  Sum_probs=70.2

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAENY   80 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~~   80 (266)
                      |+|||+|||+.+|+++|+++|+.||+|.+|.+..+..  ..++|||+|.++++|..|+ .|||..|.|+.|.|..+...
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~~   79 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQS   79 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCCC
Confidence            6899999999999999999999999999999998762  4689999999999999999 79999999999999987543

>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=99.58  E-value=3.2e-15  Score=117.69  Aligned_cols=74  Identities=16%  Similarity=0.257  Sum_probs=66.7

Q ss_pred             ccEEEEeCCCC-cccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcC--CeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSD-LAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSG--ATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~-~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng--~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+ .+||++|+++|+.||+|.+|.|+++   +++|||+|+++++|..|+ .|||  ..|.|++|.|..+..
T Consensus        15 ~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~---kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~   91 (102)
T 1x4d_A           15 RRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK---INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQK   91 (102)
T ss_dssp             CCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS---SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECC
T ss_pred             CCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcC---CCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEECCC
Confidence            57999999999 9999999999999999999999865   479999999999999999 4775  469999999998764


Q ss_pred             C
Q 024507           80 Y   80 (266)
Q Consensus        80 ~   80 (266)
                      .
T Consensus        92 ~   92 (102)
T 1x4d_A           92 Y   92 (102)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.58  E-value=5.5e-15  Score=114.15  Aligned_cols=77  Identities=14%  Similarity=0.173  Sum_probs=68.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCc-eeEEEEE-ecC---CCCcEEEEEecChHHHHHHHH-hc--CCeecCeeEEE
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGD-IERIEIL-REY---GQSKTAFVTFKDAKALEIALL-LS--GATIVDQIVSI   74 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~-I~~I~l~-~d~---~~~~~AyVtF~~~~aa~tALl-Ln--g~~l~g~~I~V   74 (266)
                      ..++|||+|||+.+|+++|+++|+.||. |.+|.|. .+.   ..+++|||+|.++++|+.|+. ||  +..|+|+.|.|
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            3579999999999999999999999998 9999998 454   247899999999999999995 85  58999999999


Q ss_pred             EeCCC
Q 024507           75 TPAEN   79 (266)
Q Consensus        75 ~~a~~   79 (266)
                      ..+..
T Consensus        87 ~~a~~   91 (109)
T 2dis_A           87 DWAEP   91 (109)
T ss_dssp             EESCS
T ss_pred             EEcCC
Confidence            98754

>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=99.58  E-value=3.7e-15  Score=120.60  Aligned_cols=75  Identities=21%  Similarity=0.254  Sum_probs=69.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.|..+.   ..+++|||+|.++++|+.|+. |||..|+|+.|.|..+.
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~  124 (129)
T 2kxn_B           46 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSI  124 (129)
T ss_dssp             SSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESCCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            5789999999999999999999999999999999875   347899999999999999995 99999999999998653

>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=99.58  E-value=9.3e-15  Score=114.38  Aligned_cols=72  Identities=15%  Similarity=0.219  Sum_probs=66.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-h--cCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-L--SGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-L--ng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|.++   +++|||+|+++++|..|+. |  ++..|.|++|.|..+.
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~---kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~   89 (101)
T 2cq1_A           15 SRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG---KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSN   89 (101)
T ss_dssp             CSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT---TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC---CCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEcC
Confidence            479999999999999999999999999999999865   6899999999999999994 4  5788999999998864

>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=99.57  E-value=6.7e-15  Score=114.44  Aligned_cols=70  Identities=19%  Similarity=0.313  Sum_probs=66.1

Q ss_pred             ccEEEEeCCCCc-ccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDL-AHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~-~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+. +|+++|+++|+.||+|.+|.|     .+++|||+|.++++|+.|+ .|||..|+|+.|.|..+.
T Consensus        27 ~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i-----~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   98 (110)
T 1wf1_A           27 NSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV-----HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAG   98 (110)
T ss_dssp             SSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE-----ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE-----eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECC
Confidence            479999999999 999999999999999999999     3789999999999999999 799999999999999864

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

Probab=99.57  E-value=3.2e-15  Score=114.42  Aligned_cols=74  Identities=22%  Similarity=0.322  Sum_probs=68.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+++|+.||.|.+|.|..+.  ..+|+|||+|+++++|+.|+. ||..|+|+.|.|..+.
T Consensus         9 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~-~~~~~~g~~l~v~~a~   84 (102)
T 2xs2_A            9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE-SQINFHGKKLKLGPAI   84 (102)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT-CCCEETTEECEEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh-CCCeECCEEEEEEECC
Confidence            5799999999999999999999999999999999886  236899999999999999999 9999999999998753

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

Probab=99.57  E-value=4.9e-15  Score=112.75  Aligned_cols=72  Identities=15%  Similarity=0.228  Sum_probs=66.9

Q ss_pred             CccEEEEeCCCC-cccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSD-LAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~-~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+ .+++++|+++|+.||+|.+|.|.     +++|||+|.++++|+.|+. |||..|.|+.|.|..+..
T Consensus         9 ~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~-----~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   82 (96)
T 2kvi_A            9 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK-----NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSSS   82 (96)
T ss_dssp             CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE-----TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEEEC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe-----CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEcCc
Confidence            358999999999 99999999999999999999995     6799999999999999995 999999999999988644

>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=99.57  E-value=7.9e-15  Score=118.74  Aligned_cols=73  Identities=14%  Similarity=0.222  Sum_probs=66.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hc--CCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LS--GATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Ln--g~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+||++|+++|+.||+|.+|.|+.+   +++|||+|++.++|..|+. ||  +..|.|++|.|..+..
T Consensus        31 s~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~---kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~  106 (119)
T 2ad9_A           31 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG---KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNH  106 (119)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG---GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEECSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEccC
Confidence            579999999999999999999999999999999976   6899999999999999994 76  5789999999998653

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

Probab=99.57  E-value=3.1e-15  Score=121.79  Aligned_cols=77  Identities=21%  Similarity=0.294  Sum_probs=70.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|..+.   ..+++|||+|.++++|+.|+ .|||..|.|+.|.|..+..
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            4789999999999999999999999999999998875   34689999999999999999 5999999999999998754


Q ss_pred             C
Q 024507           80 Y   80 (266)
Q Consensus        80 ~   80 (266)
                      -
T Consensus       127 ~  127 (135)
T 2lea_A          127 G  127 (135)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.57  E-value=3.1e-15  Score=121.96  Aligned_cols=73  Identities=22%  Similarity=0.212  Sum_probs=66.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCcee--EEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIE--RIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~--~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+||++|++||+.| .|.  +|.|+.+.  .++|||||+|+++++|+.||.++|..|+||.|.|.++
T Consensus        42 ~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~~~~~l~gR~I~V~~a  118 (126)
T 2hgm_A           42 DGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKS  118 (126)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTTTTCCBTTBCCCCEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHHCCCEECCEEEEEEEC
Confidence            4799999999999999999999999 577  99998775  3579999999999999999998999999999999875

>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=99.57  E-value=3.9e-15  Score=121.71  Aligned_cols=73  Identities=23%  Similarity=0.365  Sum_probs=68.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|+|..+  ++++|||+|.+++++..|+. |||..|.|++|.|..+.
T Consensus        73 ~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~--~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  146 (150)
T 2i2y_A           73 DCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN--PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSN  146 (150)
T ss_dssp             SCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSS--SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeC--CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcC
Confidence            479999999999999999999999999999999876  57899999999999999995 99999999999998753

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

Probab=99.56  E-value=9.9e-15  Score=115.06  Aligned_cols=72  Identities=17%  Similarity=0.230  Sum_probs=65.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCe--ecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGAT--IVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~--l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|++.   +++|||+|++.++|..|+ .|||..  |.|++|.|.-+.
T Consensus        21 s~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~~---kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~S~   95 (100)
T 3r27_A           21 SPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPK---KRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYST   95 (100)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEETT---TTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEECS
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEcC---CCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEecc
Confidence            579999999999999999999999999999999854   679999999999999999 589876  789999998753

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

Probab=99.56  E-value=1.8e-15  Score=115.60  Aligned_cols=75  Identities=17%  Similarity=0.174  Sum_probs=66.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|+++|+.||.|.+ .++.+.   ..+++|||+|.++++|+.||.|||..|.|+.|.|..+.
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a~   93 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK   93 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGCCBTTBCCEEECCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHhcCCcEECCcEEEEEEcC
Confidence            3579999999999999999999999999988 444432   35789999999999999999999999999999998764

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

Probab=99.56  E-value=6.7e-15  Score=119.71  Aligned_cols=75  Identities=19%  Similarity=0.259  Sum_probs=68.4

Q ss_pred             ccEEEEeCCCCcccHHHHH----HHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIH----EFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~----efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+    ++|+.||+|.+|.+...+..+|+|||+|.++++|..|+ .|||..|.|++|.|..+.
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            4799999999999999876    79999999999999766566899999999999999999 699999999999998764

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

Probab=99.56  E-value=4.6e-15  Score=112.10  Aligned_cols=73  Identities=27%  Similarity=0.277  Sum_probs=65.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||.|..+  ...+..+|+|||+|.++++|..|+. |||..|+|+.|.|..+.
T Consensus        16 ~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~--~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   89 (96)
T 1fjc_A           16 ARTLLAKNLSFNITEDELKEVFEDALEIRLV--SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG   89 (96)
T ss_dssp             GGEEEEESCCSSCCHHHHHHHHCSEEEECCE--EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe--CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcC
Confidence            5899999999999999999999999999888  3333457899999999999999996 99999999999998753

>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=99.56  E-value=8.9e-15  Score=114.93  Aligned_cols=73  Identities=15%  Similarity=0.205  Sum_probs=65.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCC--eecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGA--TIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~--~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.++|++|+++|+.||+|.+|.|.++   +++|||+|++.++|..|+. ||+.  .|.|++|.|..+..
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~---kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~~   90 (104)
T 1wex_A           15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF---KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTS   90 (104)
T ss_dssp             CSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT---TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECC---CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEccC
Confidence            579999999999999999999999999999999864   6899999999999999994 7654  59999999988653

>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=99.56  E-value=1.6e-14  Score=112.59  Aligned_cols=75  Identities=15%  Similarity=0.220  Sum_probs=67.0

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHH-hcCCee--------cCee
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALL-LSGATI--------VDQI   71 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALl-Lng~~l--------~g~~   71 (266)
                      ..++|||+|||+.+|+++|+++|+.||+|.+|.|..+.  ..+++|||+|.++++|+.|+. |||..|        .+++
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~~  103 (114)
T 1x5o_A           24 DPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEP  103 (114)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCCc
Confidence            35799999999999999999999999999999999886  236899999999999999995 999999        5677


Q ss_pred             EEEEeC
Q 024507           72 VSITPA   77 (266)
Q Consensus        72 I~V~~a   77 (266)
                      |.|..+
T Consensus       104 l~v~~a  109 (114)
T 1x5o_A          104 LLCKFS  109 (114)
T ss_dssp             BEEEEC
T ss_pred             eeEEcc
Confidence            888754

>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=99.55  E-value=1.5e-15  Score=125.52  Aligned_cols=74  Identities=19%  Similarity=0.162  Sum_probs=68.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+||++|++||+.|| |.+|.|+.+.  .++++|||+|+++++|+.||.||+..|+||.|.|..+.
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~  121 (139)
T 2hgn_A           46 GHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNS  121 (139)
T ss_dssp             CCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHTTCCSCSSSSCCCCCEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHHhhCCCEECCEEEEEEECC
Confidence            57899999999999999999999999 7799999876  35789999999999999999999999999999998754

>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=99.55  E-value=1.8e-14  Score=116.13  Aligned_cols=76  Identities=21%  Similarity=0.333  Sum_probs=69.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.+..+..   .+++|||+|.++++|..|+. |||..|.|++|.|..+..
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            48999999999999999999999999999999998762   35899999999999999995 999999999999988653

>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=99.55  E-value=5e-15  Score=116.97  Aligned_cols=71  Identities=14%  Similarity=0.253  Sum_probs=64.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCee-----EEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQI-----VSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~-----I~V~~a   77 (266)
                      .++|||+|||+.+++++|++||+.||+|.+|.|..+    ++|||+|+++++|+.||. |||..|+|+.     |.|...
T Consensus        16 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~----g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~v~~~   91 (115)
T 3beg_B           16 ENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVD   91 (115)
T ss_dssp             -CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT----SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEEEC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC----CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEEeccC
Confidence            478999999999999999999999999999999865    899999999999999995 9999999998     777664


Q ss_pred             C
Q 024507           78 E   78 (266)
Q Consensus        78 ~   78 (266)
                      .
T Consensus        92 ~   92 (115)
T 3beg_B           92 G   92 (115)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.55  E-value=1.5e-14  Score=124.49  Aligned_cols=79  Identities=19%  Similarity=0.277  Sum_probs=71.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAENYV   81 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~~~   81 (266)
                      .++|||+|||+.+|+++|++||+.||+|.+|+|+++..  .+|+|||+|+++++|+.|+.+.|..|+|+.|.|....+|.
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~~~~Gr~l~V~~~~~y~  188 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKDDYF  188 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTTCEETTEECEEEETTTC-
T ss_pred             cCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEhHHHH
Confidence            47999999999999999999999999999999998752  4689999999999999999877789999999999877764


Q ss_pred             C
Q 024507           82 P   82 (266)
Q Consensus        82 ~   82 (266)
                      .
T Consensus       189 ~  189 (193)
T 2voo_A          189 A  189 (193)
T ss_dssp             -
T ss_pred             H
Confidence            3

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

Probab=99.55  E-value=1.3e-14  Score=110.87  Aligned_cols=74  Identities=19%  Similarity=0.228  Sum_probs=65.0

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+|+++|+++|+.||.|   +++.+.  ..+++|||+|.++++|+.|+. |||..|.|+.|.|..+..
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   90 (101)
T 2fc9_A           14 ESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQGP   90 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEECSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEcCC
Confidence            35899999999999999999999999988   444442  357899999999999999996 999999999999998643

>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=99.55  E-value=1.7e-14  Score=120.21  Aligned_cols=75  Identities=25%  Similarity=0.286  Sum_probs=69.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|.|..+..   ..++|||+|.++++|..|| .|||..|.|+.|.|..+.
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~  150 (165)
T 1rk8_A           72 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF  150 (165)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            46899999999999999999999999999999998752   3689999999999999999 599999999999998763

>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=99.54  E-value=2.6e-14  Score=115.85  Aligned_cols=77  Identities=23%  Similarity=0.382  Sum_probs=70.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.+..+..   .+|+|||+|.++++|+.|+ .|||..|.|++|.|..+.
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            468999999999999999999999999999999998753   4689999999999999999 599999999999999865


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        82 ~   82 (168)
T 1b7f_A           82 P   82 (168)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.54  E-value=1.5e-14  Score=108.46  Aligned_cols=73  Identities=16%  Similarity=0.226  Sum_probs=66.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+++++|+++|+.| +|.++++.   ..+++|||+|.++++|+.|+. |||..|+|+.|+|..+..
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~---~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~   77 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD---RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPT   77 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE---GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe---CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcCC
Confidence            35799999999999999999999999 99999995   457899999999999999995 999999999999998643

>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=99.54  E-value=1.7e-14  Score=108.61  Aligned_cols=72  Identities=19%  Similarity=0.270  Sum_probs=65.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCc-eeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcC-CeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGD-IERIEILREYGQSKTAFVTFKDAKALEIAL-LLSG-ATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~-I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng-~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||. |..+.+.    ..++|||+|.++++|+.|+ .||| ..|+|+.|.|..+..
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~----~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~~   82 (93)
T 2cqh_A            8 MNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL----KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVS   82 (93)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE----ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc----CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEccC
Confidence            579999999999999999999999999 7777774    3679999999999999999 5999 999999999998653

>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=99.54  E-value=2.3e-14  Score=119.21  Aligned_cols=76  Identities=14%  Similarity=0.228  Sum_probs=70.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|++||+.||+|.+|.|..+..   .+|+|||+|.++++|..||.++|..|.|+.|.|..+..
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 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVS   91 (196)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhcCCCEECCEEeeeecccC
Confidence            58999999999999999999999999999999998853   46899999999999999999999999999999998754

>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=99.54  E-value=2.1e-14  Score=111.87  Aligned_cols=75  Identities=23%  Similarity=0.332  Sum_probs=66.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCce----eEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDI----ERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I----~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||.|    ..+++. .+..+++|||+|.++++|+.|+ .|||..|.|+.|.|..+.
T Consensus        25 ~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~-~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~  103 (115)
T 2cpx_A           25 NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM-TGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK  103 (115)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEE-CSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcC-CCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEcc
Confidence            4799999999999999999999999999    455555 3345789999999999999999 599999999999999865


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus       104 ~  104 (115)
T 2cpx_A          104 N  104 (115)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.53  E-value=1.4e-14  Score=127.96  Aligned_cols=75  Identities=16%  Similarity=0.182  Sum_probs=69.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCC--ceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSG--DIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG--~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a   77 (266)
                      .++|||+||++.+|+++|++||+.||  +|.+|+|+.+..   .++||||+|++.++|+.||. |||..|.|+.|.|..+
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  999999999862   46899999999999999995 9999999999999976


Q ss_pred             C
Q 024507           78 E   78 (266)
Q Consensus        78 ~   78 (266)
                      .
T Consensus       148 ~  148 (229)
T 3q2s_C          148 N  148 (229)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.53  E-value=2.8e-14  Score=108.15  Aligned_cols=70  Identities=29%  Similarity=0.377  Sum_probs=61.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCee--cCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATI--VDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l--~g~~I~V~~a~   78 (266)
                      .++|||+|||+++||++|+++|+.||+|.+|+|+.+  ++|||||+|+++++|+.   |+|..+  .|+.|.|..+.
T Consensus        11 ~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~--srGfaFV~F~~~~~A~~---~~~~~~~~~g~~v~v~~a~   82 (89)
T 3d2w_A           11 GSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP--FRAFAFVTFADDKVAQS---LCGEDLIIKGISVHISNAE   82 (89)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS--CCSEEEEEESCHHHHHH---HTTCEEEETTEEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC--CCCEEEEEECCHHHHHH---HcCCCcccCCEEEEEEEcC
Confidence            579999999999999999999999999999999875  57899999999999883   566665  59999998753

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

Probab=99.53  E-value=2.8e-14  Score=122.72  Aligned_cols=75  Identities=24%  Similarity=0.224  Sum_probs=69.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .+||||+|||+.+||++|++||+.||+|.+|+|+++..   .+++|||+|.+++++..|| .|||..+.|+.|+|....
T Consensus        15 ~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~~   93 (213)
T 4f02_A           15 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   93 (213)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCccccccccc
Confidence            47999999999999999999999999999999998863   4689999999999999999 699999999999998754

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.53  E-value=3.7e-15  Score=119.84  Aligned_cols=75  Identities=13%  Similarity=0.201  Sum_probs=68.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeE--EEEEecC---CCCcEEEEEecChHHHHHHH-HhcCC----eecCeeEE
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIER--IEILREY---GQSKTAFVTFKDAKALEIAL-LLSGA----TIVDQIVS   73 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~--I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~----~l~g~~I~   73 (266)
                      .++|||+|||+.+||++|+++|+.||.|..  |+|+.+.   ..+|||||+|.++ ++..|+ .|||.    .|+|+.|.
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            579999999999999999999999999977  9999886   2478999999999 999998 69999    99999999


Q ss_pred             EEeCCC
Q 024507           74 ITPAEN   79 (266)
Q Consensus        74 V~~a~~   79 (266)
                      |..+..
T Consensus       102 V~~a~~  107 (131)
T 2m2b_A          102 VEFAKG  107 (131)
T ss_dssp             CEECCC
T ss_pred             EEECCC
Confidence            998754

>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=99.53  E-value=2e-14  Score=116.57  Aligned_cols=76  Identities=21%  Similarity=0.302  Sum_probs=67.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeE--------EEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEE
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIER--------IEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSI   74 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~--------I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V   74 (266)
                      .++|||+|||+.+|+++|+++|+.||.|.+        |.+...+...|+|||+|.++++|..|+. |||..|.|+.|.|
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            479999999999999999999999999886        5555555567999999999999999995 9999999999999


Q ss_pred             EeCCC
Q 024507           75 TPAEN   79 (266)
Q Consensus        75 ~~a~~   79 (266)
                      ..+..
T Consensus       125 ~~a~~  129 (143)
T 3egn_A          125 QFARS  129 (143)
T ss_dssp             EECCC
T ss_pred             EECCC
Confidence            98754

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

Probab=99.52  E-value=3.7e-14  Score=121.94  Aligned_cols=75  Identities=20%  Similarity=0.305  Sum_probs=69.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+||++.+|+++|+++|+.||.|.+|+|+.+.+ .+++|||+|.++++|..|+ .|||..|+|+.|.|..+.
T Consensus       103 ~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~  179 (213)
T 4f02_A          103 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK  179 (213)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCCCceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            46899999999999999999999999999999998864 4689999999999999999 599999999999998864

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

Probab=99.51  E-value=6.5e-14  Score=112.80  Aligned_cols=74  Identities=14%  Similarity=0.148  Sum_probs=68.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a   77 (266)
                      .++|+|+|||+.+|+++|+++|+.||.|.++.+..+.   ...|+|||+|.++++|..|+. |||..|+|++|.|..+
T Consensus        87 ~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a  164 (166)
T 3md3_A           87 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA  164 (166)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccCCcEEEEEec
Confidence            5789999999999999999999999999999999885   246799999999999999995 9999999999999875

>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=99.51  E-value=1.8e-14  Score=115.53  Aligned_cols=73  Identities=12%  Similarity=0.181  Sum_probs=65.7

Q ss_pred             ccEEEEeCCCCc-ccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hc--CCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDL-AHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LS--GATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~-~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Ln--g~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+. +|+++|+++|+.||+|.+|.|.+.   +++|||+|+++++|+.|+. ||  +..|.|++|.|..+..
T Consensus        25 ~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~~---kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~  101 (112)
T 1x4f_A           25 GRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM---KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEK  101 (112)
T ss_dssp             CCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT---TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECS
T ss_pred             CCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEecC---CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEECcc
Confidence            579999999998 999999999999999999999853   6899999999999999994 65  5679999999998754

>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=99.51  E-value=4.1e-14  Score=115.20  Aligned_cols=77  Identities=25%  Similarity=0.376  Sum_probs=68.6

Q ss_pred             CCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-----CCcEEEEEecChHHHHHHH-HhcCCeec---CeeE
Q 024507            2 QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-----QSKTAFVTFKDAKALEIAL-LLSGATIV---DQIV   72 (266)
Q Consensus         2 ~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-----~~~~AyVtF~~~~aa~tAL-lLng~~l~---g~~I   72 (266)
                      ++.++|||+|||+.+|+++|+++|+.||+|.+|.|..+..     .+++|||+|.++++|+.|+ .|||..+.   ++++
T Consensus         1 s~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~   80 (175)
T 3nmr_A            1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPI   80 (175)
T ss_dssp             CCCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCC
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccce
Confidence            4679999999999999999999999999999999998862     3589999999999999999 59998886   6778


Q ss_pred             EEEeCC
Q 024507           73 SITPAE   78 (266)
Q Consensus        73 ~V~~a~   78 (266)
                      .+.+..
T Consensus        81 ~~~~~~   86 (175)
T 3nmr_A           81 QMKPAD   86 (175)
T ss_dssp             EEEECG
T ss_pred             EEcccc
Confidence            887654

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

Probab=99.51  E-value=2.4e-14  Score=112.55  Aligned_cols=74  Identities=24%  Similarity=0.309  Sum_probs=60.4

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC------CCCcEEEEEecChHHHHHHH-Hh---cCC-------
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY------GQSKTAFVTFKDAKALEIAL-LL---SGA-------   65 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~------~~~~~AyVtF~~~~aa~tAL-lL---ng~-------   65 (266)
                      +.++|||+|||+.+|+++|+++|+.||+|. +.++.+.      ..+++|||+|+++++|+.|| .|   ||.       
T Consensus         7 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~~~G~~~~~~~~   85 (114)
T 2dnl_A            7 GSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLEEDGKLYLCVSS   85 (114)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEEETTEEEEEECC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhhcCCcEEEeccC
Confidence            468999999999999999999999999999 8877664      24789999999999999999 46   554       


Q ss_pred             -eecCeeEEEEeC
Q 024507           66 -TIVDQIVSITPA   77 (266)
Q Consensus        66 -~l~g~~I~V~~a   77 (266)
                       .+.++.|.|.|+
T Consensus        86 ~~~~~~~~~v~p~   98 (114)
T 2dnl_A           86 PTIKDKPVQIRPW   98 (114)
T ss_dssp             SSSCSEEEEEECC
T ss_pred             CCcCCCeeeccCC
Confidence             344555555554

>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=99.50  E-value=2.4e-14  Score=106.87  Aligned_cols=74  Identities=30%  Similarity=0.278  Sum_probs=62.5

Q ss_pred             CCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            2 QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         2 ~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      ...++|||+|||+.+|+++|+++|+.||+|.+|+|..+  .+++|||+|+++++|+.++.. +..+.|+.|.|..+.
T Consensus         3 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~--~~g~afV~f~~~~~a~~~~~~-~~~~~g~~l~v~~a~   76 (88)
T 1wf0_A            3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP--FRAFAFVTFADDQIAQSLCGE-DLIIKGISVHISNAE   76 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS--CCSCCEEECSCHHHHHHTTTC-EEEETTEEEEEECCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC--CCCEEEEEECCHHHHHHHhcC-CceeCCEEEEEEecC
Confidence            34689999999999999999999999999999999865  578999999999999754222 344589999998753

>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=99.50  E-value=6.9e-14  Score=116.33  Aligned_cols=75  Identities=24%  Similarity=0.410  Sum_probs=69.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||.|.+|.+..+..   .+|+|||+|.++++|..||.++|..|+|+.|.|..+.
T Consensus       104 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~~~~~~~G~~i~v~~a~  181 (196)
T 1l3k_A          104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKAL  181 (196)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEEEECC
T ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHhCCcEECCEEEEEEecC
Confidence            47999999999999999999999999999999998852   4689999999999999999889999999999999864

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.50  E-value=6.4e-14  Score=116.71  Aligned_cols=80  Identities=21%  Similarity=0.350  Sum_probs=68.5

Q ss_pred             CCCccEEEEeCCCCcccHHHHHHHcccC----C-------ceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecC
Q 024507            1 MQQTRTVQVKNVSDLAHEREIHEFFSFS----G-------DIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVD   69 (266)
Q Consensus         1 M~~~~TV~V~NLs~~~Te~dL~efFs~c----G-------~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g   69 (266)
                      |.+.++|||+|||+.+|+++|++||+.|    |       .|.++.+..   .+++|||+|.++++|+.||.|||..|.|
T Consensus         1 ~~~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~---~~g~afV~F~~~~~A~~Al~l~g~~~~g   77 (198)
T 2yh0_A            1 GAMARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ---DKNFAFLEFRSVDETTQAMAFDGIIFQG   77 (198)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEET---TTTEEEEEESCSHHHHHHGGGTTEEETT
T ss_pred             CCceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecC---CCCEEEEEeCCHHHHHHHHHhcCCEEcC
Confidence            5578999999999999999999999999    5       666776653   3789999999999999999999999999


Q ss_pred             eeEEEEeCCCCCCC
Q 024507           70 QIVSITPAENYVPK   83 (266)
Q Consensus        70 ~~I~V~~a~~~~~~   83 (266)
                      +.|.|..+.....+
T Consensus        78 ~~i~v~~~~~~~~~   91 (198)
T 2yh0_A           78 QSLKIRRPHDYQPL   91 (198)
T ss_dssp             EEEEEECCCCCCCC
T ss_pred             ceEEEeCCCCCCCC
Confidence            99999988766544

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

Probab=99.50  E-value=3.7e-14  Score=120.73  Aligned_cols=76  Identities=17%  Similarity=0.180  Sum_probs=70.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+++++|++||+.||+|.+|.|..+.  ...++|||+|.++++|+.|+. |||..|+|+.|.|..+..
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~~  166 (177)
T 2f3j_A           88 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVAS  166 (177)
T ss_dssp             CEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEESS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEecC
Confidence            4799999999999999999999999999999999875  346899999999999999995 999999999999988654

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

Probab=99.50  E-value=5.4e-14  Score=107.28  Aligned_cols=72  Identities=24%  Similarity=0.278  Sum_probs=63.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.|+   .|.++.+.   ..+++|||+|.++++|+.||. |||..|.|+.|.|..+.
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~~---~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   90 (102)
T 2fc8_A           15 SKTLFVKGLSEDTTEETLKESFDGSV---RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAK   90 (102)
T ss_dssp             CSSEEEECCCTTCCHHHHHHTSTTCS---EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCccCHHHHHHHhcCCe---EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEec
Confidence            57999999999999999999999774   56666664   246899999999999999995 99999999999999864

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

Probab=99.50  E-value=9.2e-14  Score=117.24  Aligned_cols=76  Identities=16%  Similarity=0.226  Sum_probs=70.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+||++.+|+++|+++|+.||.|.+|.+..+..   ..++|||+|.+.++|..|+. |||..|+|+.|.|..+..
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            47999999999999999999999999999999998852   36899999999999999995 999999999999998654

>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=99.50  E-value=2.7e-14  Score=115.92  Aligned_cols=75  Identities=24%  Similarity=0.288  Sum_probs=69.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||.|.++.+..+.   .++|+|||+|.++++|..|+.+||..|+|+.|.|..+.
T Consensus        87 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~i~V~~a~  164 (167)
T 2cjk_A           87 TGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRAE  164 (167)
T ss_dssp             CEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHHCSEECSSSSCEEEEECC
T ss_pred             CCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHhCCCEEeCCeEEEEeecC
Confidence            4689999999999999999999999999999999875   35689999999999999999999999999999998753

>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=99.50  E-value=6e-14  Score=114.39  Aligned_cols=74  Identities=14%  Similarity=0.341  Sum_probs=68.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a   77 (266)
                      .++|+|+|||+.+|+++|+++|+.||+|.+|.+..+..   ++++|||+|.++++|..|+. |||..|+|+.|.|..+
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            47899999999999999999999999999999998852   36899999999999999995 9999999999999875

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

Probab=99.50  E-value=1.3e-13  Score=104.90  Aligned_cols=71  Identities=20%  Similarity=0.227  Sum_probs=64.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|+  .+|+++|+++|+.||+|.+|.|.   ..+++|||+|.++++|+.|+ .|||..|.|+.|.|..+.
T Consensus        14 ~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~---~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~   85 (97)
T 1x5p_A           14 KGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD---PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR   85 (97)
T ss_dssp             CCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEE---TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCS
T ss_pred             CCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEec---CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECC
Confidence            3579999995  89999999999999999999995   34789999999999999999 799999999999998764

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

Probab=99.49  E-value=7e-14  Score=117.97  Aligned_cols=76  Identities=20%  Similarity=0.252  Sum_probs=68.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|++||+.||+|.+|.|..+.   ..+++|||+|.++++|..|+. |||..|.|+.|.|..+..
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            4799999999999999999999999999999998875   257899999999999999996 999999999999976543

>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=99.49  E-value=1e-13  Score=120.16  Aligned_cols=75  Identities=15%  Similarity=0.339  Sum_probs=69.3

Q ss_pred             CccEEEEeCCC-CcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVS-DLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs-~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      +.++|||+||+ +.+|+++|+++|+.||.|.+|+|+.+  .+|+|||+|.++++|+.|+ .|||..|.|++|.|..+..
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~--~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~~   79 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKS--KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQ   79 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTT--STTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecC--CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccC
Confidence            56899999999 79999999999999999999999865  3789999999999999999 5999999999999998753

>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=99.49  E-value=1e-13  Score=113.01  Aligned_cols=78  Identities=22%  Similarity=0.387  Sum_probs=69.4

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccC----C-------ceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCee
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFS----G-------DIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQI   71 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~c----G-------~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~   71 (266)
                      +.++|||+|||+.+|+++|+++|+.|    |       .|.++.+..+   +++|||+|.++++|..|+.|||..|.|++
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~~---~g~afV~f~~~~~A~~A~~~~~~~~~g~~   79 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD---KNFAFLEFRSVDETTQAMAFDGIIFQGQS   79 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEETT---TTEEEEEESSHHHHHHHGGGTTCEETTEE
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecCC---CCEEEEEeCCHHHHHHHHHhCCcEecCce
Confidence            56899999999999999999999999    6       7888887644   78999999999999999999999999999


Q ss_pred             EEEEeCCCCCCC
Q 024507           72 VSITPAENYVPK   83 (266)
Q Consensus        72 I~V~~a~~~~~~   83 (266)
                      |.|........+
T Consensus        80 i~v~~~~~~~~~   91 (172)
T 2g4b_A           80 LKIRRPHDYQPL   91 (172)
T ss_dssp             CEEECCSSCCCC
T ss_pred             eeecCCcccCCC
Confidence            999987655443

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

Probab=99.23  E-value=2.4e-15  Score=117.97  Aligned_cols=76  Identities=17%  Similarity=0.293  Sum_probs=69.4

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeE--------EEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIER--------IEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQ   70 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~--------I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~   70 (266)
                      ..++|||+|||+.+++++|+++|+.||.|.+        |.|..+.   ..+++|||+|.++++|+.|+. |||..|.|+
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~   85 (116)
T 2lcw_A            6 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSGN   85 (116)
Confidence            4589999999999999999999999999999        8898774   246899999999999999995 999999999


Q ss_pred             eEEEEeCC
Q 024507           71 IVSITPAE   78 (266)
Q Consensus        71 ~I~V~~a~   78 (266)
                      .|.|..+.
T Consensus        86 ~l~V~~a~   93 (116)
T 2lcw_A           86 PIKVSFAT   93 (116)
Confidence            99998764

>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=99.47  E-value=1.2e-13  Score=122.80  Aligned_cols=76  Identities=14%  Similarity=0.222  Sum_probs=70.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC-CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~-~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|++||+.||+|.+|.|..+. +.+++|||+|.++++|..|+.|||..|.|+.|.|.+...
T Consensus        41 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~i~v~~~~~  117 (292)
T 2ghp_A           41 LTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHLTE  117 (292)
T ss_dssp             -CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEECCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEEECCHHHHHHHHHhCCcEeCCcEEEEEECCC
Confidence            5899999999999999999999999999999999876 347999999999999999999999999999999988654

>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=99.47  E-value=9.5e-14  Score=112.70  Aligned_cols=75  Identities=11%  Similarity=0.264  Sum_probs=67.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      +.++|||+|||+.+|+++|+++|+.||+|.+|.|..+.   .++|+|||+|.++++|+.|+. ++..|+|+.|.|..+.
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~g~~i~v~~~~   79 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK-TQHILDGKVIDPKRAI   79 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHH-SCCEETTEECCCEECC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHh-cccccCCeEccccccc
Confidence            46899999999999999999999999999999999875   356899999999999999998 4789999999987653

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.46  E-value=7.3e-14  Score=117.32  Aligned_cols=74  Identities=22%  Similarity=0.403  Sum_probs=69.2

Q ss_pred             ccEEEEeCCCC-cccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSD-LAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~-~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+ .+++++|+++|+.||.|.+|.|..+.  .++|||+|.++++|..|+. |||..|.|+.|.|..+..
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~--~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~   78 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK--KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKH   78 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC--SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC--CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecC
Confidence            48999999999 99999999999999999999998875  7899999999999999995 999999999999988754

>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=99.46  E-value=1.9e-13  Score=111.22  Aligned_cols=74  Identities=27%  Similarity=0.346  Sum_probs=67.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHH-HhcCCeecC---eeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIAL-LLSGATIVD---QIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tAL-lLng~~l~g---~~I~V~~a   77 (266)
                      .++|||+|||+.+|+++|+++|+.||.|.+|.+..+..  ++++|||+|.++++|..|+ .|||..+.+   ++|.|..+
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            57999999999999999999999999999999998863  3689999999999999999 699998874   99999865

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.45  E-value=2.3e-13  Score=113.30  Aligned_cols=75  Identities=13%  Similarity=0.337  Sum_probs=69.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+++|+.||.|.+|.+..+..   ..++|||+|.++++|..|+. |||..|+|+.|.|..+.
T Consensus       114 ~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  192 (198)
T 2yh0_A          114 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS  192 (198)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            58999999999999999999999999999999998852   36899999999999999995 99999999999999764

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.44  E-value=2e-13  Score=113.11  Aligned_cols=74  Identities=15%  Similarity=0.194  Sum_probs=64.3

Q ss_pred             CccEEEEeCC----CCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecC----h-HH---HHHHHH---hcC
Q 024507            3 QTRTVQVKNV----SDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKD----A-KA---LEIALL---LSG   64 (266)
Q Consensus         3 ~~~TV~V~NL----s~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~----~-~a---a~tALl---Lng   64 (266)
                      |...|+|+||    |+.++|.+|++||+.+|+|.+++++.|+.   +.|||||+|.|    + ++   |..|+.   |||
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            3469999999    99999999999999999999999999985   37999999996    3 32   777865   899


Q ss_pred             CeecCeeEEEEe
Q 024507           65 ATIVDQIVSITP   76 (266)
Q Consensus        65 ~~l~g~~I~V~~   76 (266)
                      ..|+|+.|+|..
T Consensus        81 ~~I~Gr~irV~l   92 (136)
T 2j8a_A           81 CFIMGFKFEVIL   92 (136)
T ss_dssp             EEETTEEEEEEE
T ss_pred             CeecCcEEEEEE
Confidence            999999999985

>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=99.44  E-value=3.2e-13  Score=109.38  Aligned_cols=73  Identities=21%  Similarity=0.276  Sum_probs=67.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecC--eeEEEEe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVD--QIVSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g--~~I~V~~   76 (266)
                      .++|+|+|||+.+++++|+++|+.||.|.++.+..+..   .+++|||+|.++++|..|+. |||..|.|  ++|+|..
T Consensus        89 ~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~V~~  167 (168)
T 1b7f_A           89 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRL  167 (168)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEEEEe
Confidence            47999999999999999999999999999999998762   35899999999999999995 99999988  9999875

>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=99.43  E-value=2.1e-13  Score=118.46  Aligned_cols=75  Identities=21%  Similarity=0.394  Sum_probs=69.7

Q ss_pred             CccEEEEeCCCC-cccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSD-LAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~-~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+ .+++++|++||+.||+|.+|.|..+.  .++|||+|.++++|+.|+ .|||..|.|+.|.|..+..
T Consensus        33 ~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~--~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~~  109 (229)
T 2adc_A           33 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK--KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKH  109 (229)
T ss_dssp             CCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT--SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC--CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecC
Confidence            358999999999 99999999999999999999999875  789999999999999999 5999999999999987754

>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=99.43  E-value=1.4e-13  Score=110.76  Aligned_cols=72  Identities=11%  Similarity=0.210  Sum_probs=65.2

Q ss_pred             ccEEEE--eCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCee-----cCeeEEEE
Q 024507            4 TRTVQV--KNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATI-----VDQIVSIT   75 (266)
Q Consensus         4 ~~TV~V--~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l-----~g~~I~V~   75 (266)
                      .++|||  +||++.+|+++|+++|+.||+|.+|.|..+   ++||||+|+++++|+.|+ .|||..|     .|++|.|.
T Consensus        25 t~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~---rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~v~  101 (114)
T 2cq2_A           25 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN---KPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLN  101 (114)
T ss_dssp             CSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT---CSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEE
T ss_pred             CCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEE
Confidence            478999  669999999999999999999999998753   679999999999999999 5999998     78899998


Q ss_pred             eCC
Q 024507           76 PAE   78 (266)
Q Consensus        76 ~a~   78 (266)
                      .+.
T Consensus       102 ~a~  104 (114)
T 2cq2_A          102 FVE  104 (114)
T ss_dssp             EES
T ss_pred             ecc
Confidence            764

>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=99.43  E-value=3.6e-13  Score=119.22  Aligned_cols=76  Identities=26%  Similarity=0.372  Sum_probs=70.5

Q ss_pred             ccEEEEeCCCCcccHHHHH----HHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIH----EFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~----efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+||++.+|+++|+    ++|+.||.|.+|.+...+..+++|||+|.+.++|..|+ .|||..|.|+.|.|..+.
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            5899999999999999977    99999999999999886666899999999999999999 799999999999998775


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        89 ~   89 (282)
T 3pgw_A           89 T   89 (282)
T ss_pred             c
Confidence            4

>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=99.43  E-value=3.3e-13  Score=110.78  Aligned_cols=73  Identities=27%  Similarity=0.277  Sum_probs=65.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||.|..+  ...+..+++|||+|.++++|..|+. |||..|+|+.|.|..+.
T Consensus        99 ~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~--~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~  172 (175)
T 1fje_B           99 ARTLLAKNLSFNITEDELKEVFEDALEIRLV--SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG  172 (175)
T ss_dssp             GGEEEEESCCSSCCHHHHHHHCTTCSEEEEE--CSSSSCCSEEEEECSSHHHHHHHHHHHTEEEETTEEEEEEECS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe--cCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEecC
Confidence            4799999999999999999999999999887  2223467899999999999999995 99999999999998753

>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=99.43  E-value=2.9e-13  Score=130.29  Aligned_cols=76  Identities=20%  Similarity=0.274  Sum_probs=70.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|++||+.||.|..|.|+.+.   ...+||||+|.++++|..|| .|||..|.|+.|.|..+..
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            3699999999999999999999999999999999874   24789999999999999999 7999999999999998754

>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=99.42  E-value=3.8e-13  Score=114.72  Aligned_cols=74  Identities=19%  Similarity=0.211  Sum_probs=66.5

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecC--eeEEEEeCCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVD--QIVSITPAEN   79 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g--~~I~V~~a~~   79 (266)
                      .+|||+||++.+|+++|+++|+.||+|++|.|..+. .+++|||+|++.++|+.|+ .|||..|.|  +.|+|..+..
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~  123 (164)
T 1sjr_A           47 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN-NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKL  123 (164)
T ss_dssp             EEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESS-SCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSS
T ss_pred             EEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCC-CCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecC
Confidence            468999999999999999999999999999997543 4679999999999999999 599999965  9999987754

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.42  E-value=8.6e-13  Score=108.49  Aligned_cols=72  Identities=19%  Similarity=0.242  Sum_probs=65.5

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcE-EEEEecChHHHHHHH-HhcCCeecC--eeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKT-AFVTFKDAKALEIAL-LLSGATIVD--QIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~-AyVtF~~~~aa~tAL-lLng~~l~g--~~I~V~~a~   78 (266)
                      ..|||+||++.+|+++|+++|+.||+|.+|.|..+.  +++ |||+|.++++|+.|+ .|||..|.|  +.|+|..+.
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~--~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak  104 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN--NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSK  104 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEET--TEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECS
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCC--CCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecC
Confidence            468999999999999999999999999999998753  577 999999999999999 699999998  889998764

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.41  E-value=9.7e-13  Score=107.06  Aligned_cols=71  Identities=21%  Similarity=0.221  Sum_probs=63.7

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcE-EEEEecChHHHHHHH-HhcCCeecC--eeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKT-AFVTFKDAKALEIAL-LLSGATIVD--QIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~-AyVtF~~~~aa~tAL-lLng~~l~g--~~I~V~~a~   78 (266)
                      ..|||+||++.+|+++|+++|+.||+|.+|.|...   .|| |||+|.++++|..|+ .|||..|.|  +.|+|..+.
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~---~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak  100 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKR---NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYAR  100 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEES---SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCS
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeC---CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEec
Confidence            35789999999999999999999999999999753   486 999999999999999 599999988  689998654

>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=99.40  E-value=7.4e-13  Score=106.67  Aligned_cols=73  Identities=19%  Similarity=0.285  Sum_probs=65.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCee--EEEEe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQI--VSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~--I~V~~   76 (266)
                      .++|+|+|||+.+++++|+++|+.||.|.++++..+..   ..++|||+|.++++|..|+. |||..|.|+.  |.|..
T Consensus        88 ~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v~~  166 (167)
T 1fxl_A           88 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKF  166 (167)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcCCccCCCccceEEEe
Confidence            47899999999999999999999999999999998752   36899999999999999995 9999999975  77754

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=99.40  E-value=6.9e-13  Score=117.50  Aligned_cols=73  Identities=22%  Similarity=0.276  Sum_probs=67.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|+++|+.||.|.+|.|.++   +|+|||+|.++++|..|+. |||..|.|+.|.|..+.
T Consensus        21 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~---kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~   94 (261)
T 3sde_A           21 QRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD---RGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFAT   94 (261)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEETT---TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeCC---CcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeecc
Confidence            3579999999999999999999999999999999754   6899999999999999995 99999999999998864

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

Probab=99.39  E-value=9.2e-13  Score=103.46  Aligned_cols=68  Identities=13%  Similarity=0.198  Sum_probs=61.0

Q ss_pred             cE-EEEeCCCCcccHHH----HHHHcccC-CceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            5 RT-VQVKNVSDLAHERE----IHEFFSFS-GDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~T-V~V~NLs~~~Te~d----L~efFs~c-G~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .| |||+|||.++++++    |+++|+.| |+|.+|.       .|+|||+|.+.++|..|+ .|||..|.||+|+|..+
T Consensus         9 ~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~Vt-------gG~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A   81 (96)
T 2diu_A            9 HTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSIT-------GCSAILRFINQDSAERAQKRMENEDVFGNRIIVSFT   81 (96)
T ss_dssp             SEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECC-------TTCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESS
T ss_pred             ceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEe-------cCEEEEEECCHHHHHHHHHHhcCCccCCceEEEEec
Confidence            45 99999999999998    55899999 5999992       389999999999999999 59999999999999876


Q ss_pred             CC
Q 024507           78 EN   79 (266)
Q Consensus        78 ~~   79 (266)
                      ..
T Consensus        82 ~~   83 (96)
T 2diu_A           82 PK   83 (96)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.39  E-value=2.2e-13  Score=111.78  Aligned_cols=77  Identities=17%  Similarity=0.187  Sum_probs=66.5

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEec--CCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILRE--YGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d--~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      +.++|||+|||+.+|+++|+++|+.||.|..+.+...  +..+|+|||+|.++++|..|+.|||..|.|+.|.|..+..
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~v~~~~~   90 (175)
T 1fje_B           12 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPKG   90 (175)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECCCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHHhcCCCEeCCeEEEEecCCC
Confidence            3689999999999999999999999998776333222  2457899999999999999999999999999999998754

>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=99.39  E-value=7.3e-13  Score=117.74  Aligned_cols=76  Identities=25%  Similarity=0.347  Sum_probs=70.1

Q ss_pred             CccEEEEeCCCCc-ccHHHHHHHcccCCceeEEEEEecC----CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDL-AHEREIHEFFSFSGDIERIEILREY----GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~-~Te~dL~efFs~cG~I~~I~l~~d~----~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      ..++|||+|||+. +|+++|+++|+.||.|.+|+|..+.    ..+++|||+|.++++|..|+.|||..|+|+.|.|..+
T Consensus       209 ~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~~l~g~~~~g~~i~V~~a  288 (292)
T 2ghp_A          209 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREISVSLA  288 (292)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGGGTTEEETTEEEEEEEC
T ss_pred             CCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHHHhcCCEECCcEEEEEEe
Confidence            3579999999999 9999999999999999999998874    3478999999999999999999999999999999876


Q ss_pred             C
Q 024507           78 E   78 (266)
Q Consensus        78 ~   78 (266)
                      .
T Consensus       289 ~  289 (292)
T 2ghp_A          289 D  289 (292)
T ss_dssp             C
T ss_pred             c
Confidence            4

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.38  E-value=9e-13  Score=118.42  Aligned_cols=75  Identities=27%  Similarity=0.333  Sum_probs=68.4

Q ss_pred             CCccEEEEeCCCCcc---------cHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCee----
Q 024507            2 QQTRTVQVKNVSDLA---------HEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATI----   67 (266)
Q Consensus         2 ~~~~TV~V~NLs~~~---------Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l----   67 (266)
                      ...+||||+||++.+         +|++|+++|+.+|+|++|+|+.+   +++|||+|.+.++|+.|+ .|||..|    
T Consensus       132 ~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~---kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~  208 (240)
T 3u1l_A          132 KKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVES---KNCGFVKFKYQANAEFAKEAMSNQTLLLPS  208 (240)
T ss_dssp             CCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGG---GTEEEEEESSHHHHHHHHHHHTTCCCCCTT
T ss_pred             cCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECC---CCEEEEEeCCHHHHHHHHHHhCCCEEeccc
Confidence            346899999999998         89999999999999999999864   689999999999999999 6999999    


Q ss_pred             --------cCeeEEEEeCCC
Q 024507           68 --------VDQIVSITPAEN   79 (266)
Q Consensus        68 --------~g~~I~V~~a~~   79 (266)
                              .|+.|.|..+.+
T Consensus       209 ~~e~~~~~~gr~L~V~wA~~  228 (240)
T 3u1l_A          209 DKEWDDRREGTGLLVKWANE  228 (240)
T ss_dssp             STTGGGGGGSCCCEEEECC-
T ss_pred             cccccccCCCCEEEEEEccC
Confidence                    899999998754

>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=99.38  E-value=2.9e-12  Score=100.35  Aligned_cols=75  Identities=17%  Similarity=0.231  Sum_probs=65.5

Q ss_pred             CccEEEEeCCCCcc-----------cHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCe
Q 024507            3 QTRTVQVKNVSDLA-----------HEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQ   70 (266)
Q Consensus         3 ~~~TV~V~NLs~~~-----------Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~   70 (266)
                      ..++|+|.||....           ++++|+++|+.||+|.+|.| .+....|+|||+|.++++|+.|+ .|||..|+|+
T Consensus        14 ~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i-~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr   92 (112)
T 2dit_A           14 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLL-FDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGR   92 (112)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE-ETTCTTCEEEEECSCHHHHHHHHHHSTTCEETTE
T ss_pred             CceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE-ecCCCCEEEEEEECCHHHHHHHHHHcCCCEECCc
Confidence            35899999995443           37899999999999999966 55567899999999999999999 6999999999


Q ss_pred             eEEEEeCC
Q 024507           71 IVSITPAE   78 (266)
Q Consensus        71 ~I~V~~a~   78 (266)
                      +|.|..+.
T Consensus        93 ~l~v~~a~  100 (112)
T 2dit_A           93 QITAQAWD  100 (112)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEEeC
Confidence            99999864

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

Probab=99.38  E-value=2.9e-12  Score=100.65  Aligned_cols=76  Identities=18%  Similarity=0.184  Sum_probs=66.6

Q ss_pred             CccEEEEeCCCC-----cccHHHHHHHcccCCceeEEEEEecC----CCCcEEEEEecChHHHHHHH-HhcCCeecCeeE
Q 024507            3 QTRTVQVKNVSD-----LAHEREIHEFFSFSGDIERIEILREY----GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIV   72 (266)
Q Consensus         3 ~~~TV~V~NLs~-----~~Te~dL~efFs~cG~I~~I~l~~d~----~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I   72 (266)
                      .+++|++.|+..     .-++++|++.|+.||+|.+|.|..++    ..+|++||+|.++++|..|+ .|||..++||.|
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            358999999973     34799999999999999999999874    34799999999999999999 599999999999


Q ss_pred             EEEeCC
Q 024507           73 SITPAE   78 (266)
Q Consensus        73 ~V~~a~   78 (266)
                      .|..+.
T Consensus        87 ~v~~a~   92 (105)
T 2pe8_A           87 KACFYN   92 (105)
T ss_dssp             EEEECC
T ss_pred             EEEEcC
Confidence            998763

>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=99.37  E-value=1.4e-12  Score=115.38  Aligned_cols=72  Identities=18%  Similarity=0.250  Sum_probs=66.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeec-CeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIV-DQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~-g~~I~V~~a   77 (266)
                      .++|||+||++.+|+++|+++|+.||.|.+|+|..+.  .++|||+|.+.++|..|+. |||..|+ |+.|+|..+
T Consensus       207 ~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~~--~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a  280 (282)
T 3pgw_A          207 NHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR--HDIAFVEFDNEVQAGAARDALQGFKITQNNAMKISFA  280 (282)
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecCC--CcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEEEEe
Confidence            4789999999999999999999999999999999654  5799999999999999995 9999999 999999864

>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=99.34  E-value=3.1e-12  Score=113.21  Aligned_cols=74  Identities=11%  Similarity=0.047  Sum_probs=68.3

Q ss_pred             ccEEEEeCCCCc-ccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDL-AHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~-~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+. +|+++|+++|+.||.|.+|.|..+..  .+++|||+|.++++|..|+. |||..|+|++|.|..+
T Consensus       184 ~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a  261 (284)
T 3smz_A          184 SRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFC  261 (284)
T ss_dssp             CSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECSSCCEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             ccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECCCCCcccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEe
Confidence            579999999999 59999999999999999999998752  46899999999999999995 9999999999999875

>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=99.33  E-value=4.3e-12  Score=112.34  Aligned_cols=76  Identities=13%  Similarity=0.140  Sum_probs=70.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+|+++|+++|+.||.|.++.+..+..   ..|+|||+|.+++++..|+ .|||..|+|+.|.|..+..
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            47899999999999999999999999999999998752   4689999999999999999 7999999999999988754

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.32  E-value=2.1e-12  Score=108.35  Aligned_cols=72  Identities=15%  Similarity=0.308  Sum_probs=66.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCC-ceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeec-CeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSG-DIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIV-DQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG-~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~-g~~I~V~~a   77 (266)
                      .++|+|+|||+.+++++|+++|+.|| +|.+|++.++.  .++|||+|.++++|..|+. |||..|+ |+.|+|..+
T Consensus       120 ~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~~--~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a  194 (198)
T 1qm9_A          120 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD--RKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFS  194 (198)
T ss_dssp             CCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESSTT--SSCEEEECSSHHHHHHHHHHHTSSCCSSCCSCCEEEE
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeCC--CcEEEEEeCCHHHHHHHHHHhcCCccCCCCeEEEEee
Confidence            57899999999999999999999999 99999997643  6899999999999999995 9999999 999999865

>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=99.30  E-value=2.4e-12  Score=111.47  Aligned_cols=67  Identities=10%  Similarity=0.138  Sum_probs=61.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCce--eEEEEEecC-CCCcEEEEEecChHHHHHHH-HhcCCeecCe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDI--ERIEILREY-GQSKTAFVTFKDAKALEIAL-LLSGATIVDQ   70 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I--~~I~l~~d~-~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~   70 (266)
                      .++|||+|||+.+|+++|+++|+.||.|  .+|++..+. +++++|||+|.+.++|..|| .|||..|.|+
T Consensus       123 ~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~  193 (205)
T 3tyt_A          123 SNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALETLGFLNHYQMKNP  193 (205)
T ss_dssp             CSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCCSSSSEEEEEECSSHHHHHHHHHHHTTCEECCS
T ss_pred             cceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCCCCCceEEEEEeCCHHHHHHHHHHhCCCCccCC
Confidence            3689999999999999999999999999  999998876 34699999999999999999 5999999988

>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=99.30  E-value=6.7e-12  Score=108.94  Aligned_cols=73  Identities=15%  Similarity=0.327  Sum_probs=67.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCC-ceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hcCCeec-CeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSG-DIERIEILREYGQSKTAFVTFKDAKALEIALL-LSGATIV-DQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG-~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Lng~~l~-g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|+++|+.|| +|.+|++..+  .+++|||+|.+.++|..|+. |||..|+ |+.|.|..+.
T Consensus       151 ~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~--~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a~  226 (229)
T 2adc_A          151 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK--DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK  226 (229)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSS--STTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECS
T ss_pred             CCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEEC--CCcEEEEEECCHHHHHHHHHHHCCCccCCCCeEEEEEec
Confidence            47899999999999999999999999 9999999754  26799999999999999995 9999999 9999998753

>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=99.28  E-value=7.6e-12  Score=110.77  Aligned_cols=77  Identities=23%  Similarity=0.360  Sum_probs=67.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHH-Hhc-CCeec---CeeEEEEe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIAL-LLS-GATIV---DQIVSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tAL-lLn-g~~l~---g~~I~V~~   76 (266)
                      .++|||+|||+.+|+++|+++|+.||.|.+|.|..+..  +.|+|||+|.++++|..|+ .|| |..+.   +++|.|.+
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            57999999999999999999999999999999998852  4689999999999999999 574 55554   99999998


Q ss_pred             CCCC
Q 024507           77 AENY   80 (266)
Q Consensus        77 a~~~   80 (266)
                      +...
T Consensus       176 ~~~~  179 (261)
T 3sde_A          176 MEQF  179 (261)
T ss_dssp             CCCE
T ss_pred             cccc
Confidence            8654

>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=99.21  E-value=8.6e-12  Score=97.57  Aligned_cols=69  Identities=14%  Similarity=0.250  Sum_probs=58.6

Q ss_pred             EeCCCCcccHHHHHHHc------------ccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEE
Q 024507            9 VKNVSDLAHEREIHEFF------------SFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVS   73 (266)
Q Consensus         9 V~NLs~~~Te~dL~efF------------s~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~   73 (266)
                      +.||++.+++++|+++|            +.||+|.+|.|.++.  .++|+|||+|+++++|..|+ .|||..++||.|.
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            45566677888777766            999999999999875  24789999999999999999 5999999999999


Q ss_pred             EEeC
Q 024507           74 ITPA   77 (266)
Q Consensus        74 V~~a   77 (266)
                      |..+
T Consensus       100 v~~s  103 (104)
T 1jmt_A          100 AELS  103 (104)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            9754

>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=99.17  E-value=5.8e-11  Score=93.08  Aligned_cols=74  Identities=20%  Similarity=0.212  Sum_probs=64.0

Q ss_pred             ccEEEEeCCCC--c--------ccHHHHHHHcccCCceeEEEEEecCC-----CCcEEEEEecChHHHHHHH-HhcCCee
Q 024507            4 TRTVQVKNVSD--L--------AHEREIHEFFSFSGDIERIEILREYG-----QSKTAFVTFKDAKALEIAL-LLSGATI   67 (266)
Q Consensus         4 ~~TV~V~NLs~--~--------~Te~dL~efFs~cG~I~~I~l~~d~~-----~~~~AyVtF~~~~aa~tAL-lLng~~l   67 (266)
                      ++.|.+.|+-.  .        ..+++|++.|+.||+|.+|.|+++..     ..|++||+|+++++|..|+ .|||..+
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            57899999833  2        24589999999999999999987752     4689999999999999999 6999999


Q ss_pred             cCeeEEEEeC
Q 024507           68 VDQIVSITPA   77 (266)
Q Consensus        68 ~g~~I~V~~a   77 (266)
                      +||.|+|..+
T Consensus        85 ~GR~i~v~~~   94 (105)
T 3v4m_A           85 ANRVVVTKYC   94 (105)
T ss_dssp             TTEECEEEEE
T ss_pred             CCCEEEEEEe
Confidence            9999999865

>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=99.14  E-value=1.8e-10  Score=92.50  Aligned_cols=74  Identities=23%  Similarity=0.230  Sum_probs=64.7

Q ss_pred             ccEEEEeCCCCc-----ccHHHHHHHcccCCceeEEEEEecCC-------CCcEEEEEecChHHHHHHH-HhcCCeecCe
Q 024507            4 TRTVQVKNVSDL-----AHEREIHEFFSFSGDIERIEILREYG-------QSKTAFVTFKDAKALEIAL-LLSGATIVDQ   70 (266)
Q Consensus         4 ~~TV~V~NLs~~-----~Te~dL~efFs~cG~I~~I~l~~d~~-------~~~~AyVtF~~~~aa~tAL-lLng~~l~g~   70 (266)
                      +++|++.|+-..     --++||++.|+.||+|.+|.|..+..       ..|++||+|.++++|..|+ .|||..++||
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            689999998532     24799999999999999999998742       2489999999999999999 6999999999


Q ss_pred             eEEEEeC
Q 024507           71 IVSITPA   77 (266)
Q Consensus        71 ~I~V~~a   77 (266)
                      .|+|..+
T Consensus       100 ~i~v~~~  106 (118)
T 3ue2_A          100 KVVAEVY  106 (118)
T ss_dssp             ECEEEEE
T ss_pred             EEEEEEc
Confidence            9999875

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.08  E-value=9.2e-10  Score=86.04  Aligned_cols=71  Identities=20%  Similarity=0.205  Sum_probs=58.9

Q ss_pred             cEEEEeCCC-------CcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVS-------DLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs-------~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      +.+.|.-..       +.+++++|+++|+.||+|.+|.|..  ..+|||||+|+++++|+.|+.. +..+.|++|+|..+
T Consensus        11 ~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~v~i~~--~~rGfaFVeF~~~~~A~~Ai~~-~~~~~g~~l~V~~a   87 (100)
T 2d9o_A           11 PKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLSS--KKPGTAVVEFATVKAAELAVQN-EVGLVDNPLKISWL   87 (100)
T ss_dssp             CEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEEEEEES--SSSSEEEEEESCHHHHHHHHHT-CCBCSSSBCEEECS
T ss_pred             ceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEEEEEcc--CCCCEEEEEECCHHHHHHHHHh-cCCCCCCeEEEEEc
Confidence            466666544       5689999999999999999999983  4578999999999999999964 34478999999865


Q ss_pred             C
Q 024507           78 E   78 (266)
Q Consensus        78 ~   78 (266)
                      .
T Consensus        88 ~   88 (100)
T 2d9o_A           88 E   88 (100)
T ss_dssp             S
T ss_pred             c
Confidence            3

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.04  E-value=6.6e-10  Score=90.40  Aligned_cols=73  Identities=18%  Similarity=0.195  Sum_probs=64.2

Q ss_pred             CCccEEEEeCCCCc-ccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecC-hHHHHHHH-Hh--cCCeecCeeEEEEe
Q 024507            2 QQTRTVQVKNVSDL-AHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKD-AKALEIAL-LL--SGATIVDQIVSITP   76 (266)
Q Consensus         2 ~~~~TV~V~NLs~~-~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~-~~aa~tAL-lL--ng~~l~g~~I~V~~   76 (266)
                      -.+.-|+|+||++. +++++|+++|+.+|+|.+|.+..++.   +|||.|.+ +.+|..|+ .|  +|.+|.|..++++.
T Consensus        16 ~~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~---tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~ev   92 (121)
T 1owx_A           16 KIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAK---EGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEV   92 (121)
T ss_dssp             CCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCS---EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEE
T ss_pred             cCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCC---EEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEEE
Confidence            34678999999999 99999999999999999999987754   79999999 78888888 57  47889999999876


Q ss_pred             C
Q 024507           77 A   77 (266)
Q Consensus        77 a   77 (266)
                      .
T Consensus        93 L   93 (121)
T 1owx_A           93 L   93 (121)
T ss_dssp             C
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=99.02  E-value=4e-10  Score=106.00  Aligned_cols=71  Identities=14%  Similarity=0.257  Sum_probs=61.4

Q ss_pred             ccEEEEeC--CCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeec---Ce--eEEEE
Q 024507            4 TRTVQVKN--VSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIV---DQ--IVSIT   75 (266)
Q Consensus         4 ~~TV~V~N--Ls~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~---g~--~I~V~   75 (266)
                      ++++||+|  |+..+||++|+++|+.||+|++|.|..   .++||||+|++.++|+.|+ .|||..+.   |+  +|.|.
T Consensus        18 s~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~---~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly~~   94 (345)
T 3tht_A           18 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP---NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLN   94 (345)
T ss_dssp             CSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT---TCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEE
T ss_pred             CCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC---CCCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEEEE
Confidence            47999999  578999999999999999999998865   3689999999999999999 59999984   44  56665


Q ss_pred             eC
Q 024507           76 PA   77 (266)
Q Consensus        76 ~a   77 (266)
                      -.
T Consensus        95 ~~   96 (345)
T 3tht_A           95 FV   96 (345)
T ss_dssp             EC
T ss_pred             Ee
Confidence            54

>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=99.00  E-value=1.2e-09  Score=87.30  Aligned_cols=73  Identities=15%  Similarity=0.178  Sum_probs=62.7

Q ss_pred             ccEEEEeCCCCcc----------cHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeE
Q 024507            4 TRTVQVKNVSDLA----------HEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIV   72 (266)
Q Consensus         4 ~~TV~V~NLs~~~----------Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I   72 (266)
                      ++.|.+.|+=..-          -++||++.|+.||+|.+|.|.++. ..|++||+|+++++|..|+ .|||..++||.|
T Consensus         7 s~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            7 TQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS-AQGNVYVKCPSIAAAIAAVNALHGRWFAGKMI   85 (114)
T ss_dssp             CSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC-TTCCEEEECSSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCC-CcEEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            4678888875422          356899999999999999997654 4799999999999999999 699999999999


Q ss_pred             EEEeC
Q 024507           73 SITPA   77 (266)
Q Consensus        73 ~V~~a   77 (266)
                      .|..+
T Consensus        86 ~v~~~   90 (114)
T 3s6e_A           86 TAAYV   90 (114)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            99875

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.87  E-value=5.2e-09  Score=81.33  Aligned_cols=69  Identities=22%  Similarity=0.303  Sum_probs=60.1

Q ss_pred             cEEEEeCCCC----cccH----HHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEe
Q 024507            5 RTVQVKNVSD----LAHE----REIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITP   76 (266)
Q Consensus         5 ~TV~V~NLs~----~~Te----~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~   76 (266)
                      .||.|...+.    +.-+    .+|.+.|+.||+|..+++..+.     +||+|.+.++|.+|+.|||..+.||.|+|..
T Consensus         8 ~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d~-----~fVtF~d~~sAlaAi~mnG~~v~Gr~LkV~l   82 (91)
T 2dnr_A            8 GTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVEDK-----MWVTFLEGSSALNVLSLNGKELLNRTITIAL   82 (91)
T ss_dssp             CEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSSS-----EEEEESSHHHHHHGGGGTTCEETTEEEEEEE
T ss_pred             CeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecCC-----EEEEECChHHHHHHHhcCCeEeCCeEEEEEe
Confidence            5888888762    3333    6799999999999999999764     9999999999999999999999999999998


Q ss_pred             CC
Q 024507           77 AE   78 (266)
Q Consensus        77 a~   78 (266)
                      +.
T Consensus        83 kt   84 (91)
T 2dnr_A           83 KS   84 (91)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>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=98.75  E-value=1.5e-08  Score=79.40  Aligned_cols=68  Identities=24%  Similarity=0.242  Sum_probs=59.8

Q ss_pred             cEEEEeCCCCc-----ccH----HHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEE
Q 024507            5 RTVQVKNVSDL-----AHE----REIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSIT   75 (266)
Q Consensus         5 ~TV~V~NLs~~-----~Te----~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~   75 (266)
                      .||.|..+++.     .-+    .+|.+.|+.||+|..+++..++     +||+|.+.++|.+|+.|||..+.||.|+|.
T Consensus        16 ~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~-----~fVtF~d~~sAl~AI~ldG~~v~Gr~L~V~   90 (95)
T 1ufw_A           16 ATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ-----MLVTFADSHSALSVLDVDGMKVKGRAVKIS   90 (95)
T ss_dssp             CEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE-----EEEECSCSHHHHHHHHGGGSEETTEEEEEE
T ss_pred             CeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc-----EEEEEcChHHHHHHHhcCCeeeCCeEEEEe
Confidence            69999988754     222    5699999999999999999774     999999999999999999999999999998


Q ss_pred             eC
Q 024507           76 PA   77 (266)
Q Consensus        76 ~a   77 (266)
                      ..
T Consensus        91 ~k   92 (95)
T 1ufw_A           91 GP   92 (95)
T ss_dssp             CC
T ss_pred             cc
Confidence            64

>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=98.36  E-value=8.4e-07  Score=76.27  Aligned_cols=63  Identities=24%  Similarity=0.217  Sum_probs=55.4

Q ss_pred             ccHHHHHHHcccCCceeEEEEEecCC-------CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507           16 AHEREIHEFFSFSGDIERIEILREYG-------QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus        16 ~Te~dL~efFs~cG~I~~I~l~~d~~-------~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      -.+++|++.|+.+|+|.++.+.++..       ..|++||+|.+.++|.+|+ .|||..++||.|.|..+.
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            46789999999999999999986531       3589999999999999999 699999999999998753

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.32  E-value=1.6e-06  Score=69.84  Aligned_cols=72  Identities=19%  Similarity=0.303  Sum_probs=64.9

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccC-----CceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFS-----GDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~c-----G~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      +.++|-+-|||..+++..|+.|....     |.|..|-|.+|   .+-|.|+|.|...|-+|. .|||.+|.||.|++..
T Consensus        20 ~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pD---H~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~gT   96 (117)
T 2l9w_A           20 LETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSD---FNGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSGT   96 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETT---TTEEEEECSCHHHHHHHHHHHSSEEETTEEEEEEC
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecC---CCceEEEEccchhhHHHHhhcCCeeecCeEEEecC
Confidence            36899999999999999999999999     99999999987   568999999998877775 6999999999999975


Q ss_pred             C
Q 024507           77 A   77 (266)
Q Consensus        77 a   77 (266)
                      .
T Consensus        97 v   97 (117)
T 2l9w_A           97 I   97 (117)
T ss_dssp             H
T ss_pred             H
Confidence            3

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

Probab=98.02  E-value=3.5e-05  Score=61.09  Aligned_cols=70  Identities=17%  Similarity=0.259  Sum_probs=62.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHccc----C-CceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSF----S-GDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~----c-G~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|.|.|||+.+.++.|.-||..    . |+|++|+...     +.|+|+|.++..+++.|......|.+.+|.|.|+.
T Consensus         8 ~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~-----~~AvItF~d~~va~rVL~k~~H~L~~~~LsV~P~~   82 (104)
T 2dhx_A            8 GVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG-----CGGVLTFREPADAERVLAQADHELHGAQLSLRPAP   82 (104)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET-----TEEEEEESSHHHHHHHHTCSCCBSSSSBCEEEECC
T ss_pred             ccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC-----CcEEEEEcChHHHHHHhcCCcceecCeEEEEEcCC
Confidence            579999999999999999999976    2 5899999864     68999999999999999888999999999999853

>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=97.84  E-value=0.00011  Score=59.45  Aligned_cols=72  Identities=14%  Similarity=0.155  Sum_probs=61.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecC-eeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVD-QIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g-~~I~V~~a~~   79 (266)
                      .+.|.|-+.|+.. -..|..+|+.||+|.+....   .....-+|.|.++.+|+.||..||..|+| --|-|.++.+
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-ASYILLQFAQYGNILKHVMS---NTGNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKPCID   96 (119)
T ss_dssp             GGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEEC---SSSSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEECCC
T ss_pred             CCEEEEECCCHHH-HHHHHHHHHhhCcEEEeccC---CCCCeEEEEeCCHHHHHHHHHhCCeEecCCEEEEEEECCC
Confidence            4689999999996 56777888999999998872   23579999999999999999999999986 5688888643

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=97.04  E-value=0.00077  Score=55.46  Aligned_cols=74  Identities=19%  Similarity=0.250  Sum_probs=57.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeE-EEEEec--------------CC--CCcEEEEEecChHHHHHHHHhcCCe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIER-IEILRE--------------YG--QSKTAFVTFKDAKALEIALLLSGAT   66 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~-I~l~~d--------------~~--~~~~AyVtF~~~~aa~tALlLng~~   66 (266)
                      ..-|.|-+.|+..+ ..|-++|+.||.|.. +.+.+.              +.  ....-.|+|.++.+|..||..||..
T Consensus         7 e~~VtVFGFp~~~~-~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG~i   85 (132)
T 3p3d_A            7 ELAILVFGYPETMA-NQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENGAV   85 (132)
T ss_dssp             -CEEEEECCCGGGH-HHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTTCE
T ss_pred             ceEEEEEecCHHHH-HHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCCeE
Confidence            35799999966665 566678899999865 332210              00  1457899999999999999999999


Q ss_pred             ecCeeEEEEeCC
Q 024507           67 IVDQIVSITPAE   78 (266)
Q Consensus        67 l~g~~I~V~~a~   78 (266)
                      |+|.-|-|.|+.
T Consensus        86 i~G~mIGV~Py~   97 (132)
T 3p3d_A           86 FNGVLLGVIPYT   97 (132)
T ss_dssp             ETTEECEEEECC
T ss_pred             eCcEEEEEEECC
Confidence            999999999874

>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=96.79  E-value=0.0036  Score=49.49  Aligned_cols=72  Identities=10%  Similarity=0.084  Sum_probs=61.5

Q ss_pred             ccEEEEeCCCCcc-c----HHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLA-H----EREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~-T----e~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .+|++|+||++.+ .    .+.++++|..++++.+....+.   .+-.-|.|.++++|..|- .|+|..+.|..|+|--+
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkS---FRRirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~YFg   81 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKS---FKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFA   81 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETT---TTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECC
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCc---ceEEEEEeCChHHHHHHHHHhccceecCceeEEEec
Confidence            5799999999866 2    2577999999999999888754   567899999999999885 79999999999999776


Q ss_pred             C
Q 024507           78 E   78 (266)
Q Consensus        78 ~   78 (266)
                      +
T Consensus        82 q   82 (104)
T 1wey_A           82 Q   82 (104)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=96.57  E-value=0.011  Score=45.54  Aligned_cols=66  Identities=12%  Similarity=0.257  Sum_probs=55.2

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-----CCcEEEEEecChHHHHHHH-HhcCCeecCe
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-----QSKTAFVTFKDAKALEIAL-LLSGATIVDQ   70 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-----~~~~AyVtF~~~~aa~tAL-lLng~~l~g~   70 (266)
                      ..|.|.+|||..||+++.+-++...++........+-     ....|||.|.+++.+..-. .++|..+.|.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D~   73 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDN   73 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECT
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEcC
Confidence            4789999999999999999999999888777765441     2468999999998888766 6999998765

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=96.32  E-value=0.002  Score=62.78  Aligned_cols=64  Identities=16%  Similarity=0.175  Sum_probs=47.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQ   70 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~   70 (266)
                      .|+|+|. .++..++.+|.++|+.+|+|.++.+..+.  .-+|.|+|.+.+++..++...+....+.
T Consensus        53 ~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~--g~~~~vef~~~~~~~~~~~~~~~p~~~~  116 (464)
T 3pq1_A           53 QRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESF--GLYAVVEFCQKESIGSLQNGTHTPXXXX  116 (464)
T ss_dssp             HTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSS--SEEEEEECC---CCHHHHSSCCCCCCBC
T ss_pred             cceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccC--CeEEEEEeCCHHHHHHHHhccCCCcccc
Confidence            4899998 79999999999999999999999998653  4799999999999998776555444443

>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=94.58  E-value=0.06  Score=42.22  Aligned_cols=50  Identities=20%  Similarity=0.313  Sum_probs=42.4

Q ss_pred             EEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH
Q 024507            7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL   61 (266)
Q Consensus         7 V~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl   61 (266)
                      |++-++|+.+...||.+.|+.||- ..|+-+.|.    .|||.|.+++.+..||.
T Consensus        18 Vf~l~FP~ewKt~DI~~lFs~fgg-v~I~WidDT----sAlvvf~~~~~a~~al~   67 (100)
T 1whv_A           18 VLHVTFPKEWKTSDLYQLFSAFGN-IQISWIDDT----SAFVSLSQPEQVQIAVN   67 (100)
T ss_dssp             EEEEECCTTCCHHHHHHHHTTTCS-CCCEEEETT----EEEEECSCHHHHHHHHH
T ss_pred             EEEEeCChhhhhHHHHHHhhccCC-EEEEEEcCC----eEEEEecCHHHHHHHHH
Confidence            555599999999999999999994 456666554    79999999999999885

>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=94.55  E-value=0.065  Score=42.10  Aligned_cols=52  Identities=19%  Similarity=0.285  Sum_probs=43.4

Q ss_pred             EEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH-hc
Q 024507            7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL-LS   63 (266)
Q Consensus         7 V~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl-Ln   63 (266)
                      |++-++|+.+...||.+.|+.||- ..|.-+.|.    .|||.|.+++.+..||. ++
T Consensus         8 V~~l~FP~ewKt~Di~~lFs~fgg-v~I~WidDT----sAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            8 VLHVTFPKEWKTSDLYQLFSAFGN-IQISWIDDT----SAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEECCTTCCHHHHHHHTTTSEE-EEEEEEETT----EEEEEEEEECHHHHHHHHHT
T ss_pred             EEEEeCChhhhhHHHHHHHhccCC-EEEEEEcCC----eEEEEecCHHHHHHHHHhcc
Confidence            555599999999999999999993 456666654    79999999999999985 44

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=92.99  E-value=0.088  Score=40.98  Aligned_cols=66  Identities=11%  Similarity=0.187  Sum_probs=47.1

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC-----CCCcEEEEEecChHHHHHHH-HhcCCeecCe
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-----GQSKTAFVTFKDAKALEIAL-LLSGATIVDQ   70 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~-----~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~   70 (266)
                      -.|.|.+|||..||+++.+-++.+=++........+     .....|||.|.+++.+..-. ..+|..+.|.
T Consensus        10 ~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D~   81 (97)
T 2l08_A           10 HMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLDS   81 (97)
T ss_dssp             CCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEECT
T ss_pred             eeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEeC
Confidence            468999999999999987766654343332222211     12357999999999888866 6999988765

>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=87.49  E-value=0.5  Score=37.53  Aligned_cols=40  Identities=13%  Similarity=0.002  Sum_probs=28.6

Q ss_pred             EEEEEecC-CCCcEEEEEecChHHHHHHH-HhcCCeecCeeE
Q 024507           33 RIEILREY-GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIV   72 (266)
Q Consensus        33 ~I~l~~d~-~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I   72 (266)
                      ++.|..++ ...|++||+|.+++.|+.|+ .+++....+..+
T Consensus         2 ~~kl~ln~~~~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~   43 (158)
T 2kn4_A            2 QYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEW   43 (158)
T ss_dssp             EEEEEEECSSCEEEEEEECSSHHHHHHHHHHHHHHHTCCCEE
T ss_pred             cEEEEecCccccchhHHHHHHHHhHHHHHHhhcccCCCCCcc
Confidence            45666665 35799999999999999999 466544333333

>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=84.58  E-value=0.67  Score=36.66  Aligned_cols=42  Identities=10%  Similarity=-0.030  Sum_probs=34.6

Q ss_pred             EEecC-CCCcEEEEEecChHHHHHHH-Hh-cCCeecCeeEEEEeCC
Q 024507           36 ILREY-GQSKTAFVTFKDAKALEIAL-LL-SGATIVDQIVSITPAE   78 (266)
Q Consensus        36 l~~d~-~~~~~AyVtF~~~~aa~tAL-lL-ng~~l~g~~I~V~~a~   78 (266)
                      |..++ ...|+++|+|.+++.|+.|+ .| ||..|+| .|.+..+.
T Consensus         5 l~l~g~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~   49 (150)
T 2i2y_A            5 LILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDAT   49 (150)
T ss_dssp             EEECCSSSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTT
T ss_pred             eeeccccccccceeeecCHHHHHHHHHHHhcCCCCCC-ceeccccc
Confidence            33343 34789999999999999999 68 9999999 99998654

---

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	266
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	3e-05
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	5e-05
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	6e-05
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	7e-05
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	2e-04
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	5e-04
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	5e-04
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	0.001
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	0.001
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	0.002
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	0.002

>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 = 39.7 bits (92), Expect = 3e-05
 Identities = 17/88 (19%), Positives = 35/88 (39%), Gaps = 6/88 (6%)

Query: 2   QQTRTVQVKNVSDLAHEREIHEFFSFSGDI--ERIEILREYGQSK-TAFVTFKDAKALEI 58
           +Q R + +  +S    E  +  ++   G +    +       +S+   FVTF     ++ 
Sbjct: 18  EQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDA 77

Query: 59  ALLLSGATIVDQIVSITPAENYVPKPES 86
           A+     +I  ++V    A   V + ES
Sbjct: 78  AMAARPHSIDGRVVEPKRA---VAREES 102

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.0 bits (90), Expect = 5e-05
 Identities = 18/88 (20%), Positives = 31/88 (35%), Gaps = 8/88 (9%)

Query: 5  RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILR-------EYGQSK-TAFVTFKDAKAL 56
          R + V N+     E  + +FF+    +  +           +  Q K  AF+ F+     
Sbjct: 2  RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 61

Query: 57 EIALLLSGATIVDQIVSITPAENYVPKP 84
            A+   G     Q + I    +Y P P
Sbjct: 62 TQAMAFDGIIFQGQSLKIRRPHDYQPLP 89

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.2 bits (91), Expect = 6e-05
 Identities = 15/78 (19%), Positives = 34/78 (43%), Gaps = 1/78 (1%)

Query: 2  QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL- 60
          +  R + ++N+       E+++ F   G I +I +        TA+V ++D    + A  
Sbjct: 5  EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACD 64

Query: 61 LLSGATIVDQIVSITPAE 78
           LSG  + ++ + +    
Sbjct: 65 HLSGFNVCNRYLVVLYYN 82

>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 = 38.9 bits (90), Expect = 7e-05
 Identities = 15/80 (18%), Positives = 40/80 (50%), Gaps = 3/80 (3%)

Query: 2  QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSK---TAFVTFKDAKALEI 58
          +  RTV    ++     R++ +FFS  G +  + I+ +    +    A+V F + +++ +
Sbjct: 16 RDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPL 75

Query: 59 ALLLSGATIVDQIVSITPAE 78
          A+ L+G  ++   + +  ++
Sbjct: 76 AIGLTGQRLLGVPIIVQASQ 95

>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 = 37.6 bits (87), Expect = 2e-04
 Identities = 18/84 (21%), Positives = 39/84 (46%), Gaps = 6/84 (7%)

Query: 2  QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSK----TAFVTFKDAKALE 57
          Q T  + V+N+   A++REI E FS  G+++ + + ++   +       FV F   +  +
Sbjct: 6  QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAK 65

Query: 58 IAL--LLSGATIVDQIVSITPAEN 79
           A   L     +  + + +  A++
Sbjct: 66 KAFNALCHSTHLYGRRLVLEWADS 89

>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 = 36.2 bits (83), Expect = 5e-04
 Identities = 12/79 (15%), Positives = 30/79 (37%), Gaps = 3/79 (3%)

Query: 2  QQTRTVQVKNVSDLAHEREIHEFFSFSGDIER--IEILREYGQSKT-AFVTFKDAKALEI 58
          +Q R + +  +S    +  +   F   G +    +       +S+   FVT+   + ++ 
Sbjct: 4  EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA 63

Query: 59 ALLLSGATIVDQIVSITPA 77
          A+      +  ++V    A
Sbjct: 64 AMNARPHKVDGRVVEPKRA 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 = 36.3 bits (83), Expect = 5e-04
 Identities = 13/80 (16%), Positives = 29/80 (36%), Gaps = 2/80 (2%)

Query: 3  QTRTVQVKNVSDLAHEREIHEFF-SFSGDIERIEILREYGQSK-TAFVTFKDAKALEIAL 60
          + R+V +K     A   +I E+       +        +   K + FV F   ++ +  +
Sbjct: 5  KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFV 64

Query: 61 LLSGATIVDQIVSITPAENY 80
             G    +  + I   ++Y
Sbjct: 65 ETPGQKYKETDLLILFKDDY 84

>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 = 35.0 bits (80), Expect = 0.001
 Identities = 16/87 (18%), Positives = 33/87 (37%), Gaps = 7/87 (8%)

Query: 1  MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL 60
          M   + + V+N+     E  I + F+         + +       AFV F + +    A+
Sbjct: 5  MSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIR---DYAFVHFSNREDAVEAM 61

Query: 61 L-LSGATIVDQIVSITPAENYVPKPES 86
            L+G  +    + +T A+   P  + 
Sbjct: 62 KALNGKVLDGSPIEVTLAK---PVDKD 85

>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 = 34.6 bits (79), Expect = 0.001
 Identities = 13/72 (18%), Positives = 29/72 (40%), Gaps = 3/72 (4%)

Query: 9  VKNVSDLAHEREIHEFFSFSGDIE--RIEILREYGQSK-TAFVTFKDAKALEIALLLSGA 65
          +  +S    +  + E+F   G+++   +       +S+   FVTF D   ++  L  S  
Sbjct: 5  IGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRH 64

Query: 66 TIVDQIVSITPA 77
           +  + +    A
Sbjct: 65 ELDSKTIDPKVA 76

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.9 bits (80), Expect = 0.002
 Identities = 21/78 (26%), Positives = 41/78 (52%), Gaps = 4/78 (5%)

Query: 1  MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKT---AFVTFKDAKALE 57
          ++++ T+ V N+S    E +I+E FS SGDI++I +  +  +       FV +      E
Sbjct: 4  LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAE 63

Query: 58 IAL-LLSGATIVDQIVSI 74
           A+  ++G  + D+I+  
Sbjct: 64 NAMRYINGTRLDDRIIRT 81

>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 = 34.5 bits (79), Expect = 0.002
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 4/74 (5%)

Query: 9  VKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSK---TAFVTFKDAKALEIAL-LLSG 64
          V ++     E  ++E FS +G I  I + R+    +    A+V F+     E AL  ++ 
Sbjct: 5  VGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNF 64

Query: 65 ATIVDQIVSITPAE 78
            I  + V I  ++
Sbjct: 65 DVIKGKPVRIMWSQ 78

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	266
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.81
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.76
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.74
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.74
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.73
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.72
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.72
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.72
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.72
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.72
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.71
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.71
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.71
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.71
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.71
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.71
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.71
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.71
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.71
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.71
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.71
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.7
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.7
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.7
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.7
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.69
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.68
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.68
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.68
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.68
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.68
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.68
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.68
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.67
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.67
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.67
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.66
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.66
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.66
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.66
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.66
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.66
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.66
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.66
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.66
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.65
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.65
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.65
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.65
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.64
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.64
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.63
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.63
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.63
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.63
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.63
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.62
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.61
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.6
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.6
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.6
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.59
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.59
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.58
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.58
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.58
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.58
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.57
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.57
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.54
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.53
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.53
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.52
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.52
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.51
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.5
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.5
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.49
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.48
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.47
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.4
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.39
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.34
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.26
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	99.24
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.22
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.03
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.59
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	96.75
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	96.09
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	88.12

>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=99.81  E-value=5.7e-20  Score=134.84  Aligned_cols=73  Identities=15%  Similarity=0.233  Sum_probs=68.9

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC-CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~-~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      +||||+|||+++++++|++||+.||+|++|+|..++ +.+++|||+|+++++|+.||.+||..|+|++|.|..+
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 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHHHhcCcEECCEEEEEEEC
Confidence            589999999999999999999999999999999887 4578999999999999999999999999999999874

>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=99.76  E-value=1.5e-18  Score=126.96  Aligned_cols=74  Identities=24%  Similarity=0.428  Sum_probs=69.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+++|+++|++||+.||.|..+.+..++.   .+|+|||+|.++++++.|+.|||..|+|+.|.|..+
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 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEEEEC
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            37999999999999999999999999999999998863   368999999999999999999999999999999865

>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=99.74  E-value=4.1e-18  Score=127.15  Aligned_cols=74  Identities=15%  Similarity=0.239  Sum_probs=69.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+++|+.+..   ++|+|||+|.++++++.||.++|..|+|+.|.|..+
T Consensus         6 ~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~~~~~~i~Gr~i~V~~A   82 (84)
T d1l3ka1           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRA   82 (84)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEEC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEee
Confidence            47999999999999999999999999999999998863   468999999999999999999999999999999876

>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=99.74  E-value=6.7e-18  Score=128.06  Aligned_cols=78  Identities=27%  Similarity=0.345  Sum_probs=71.3

Q ss_pred             CCCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEe
Q 024507            1 MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         1 M~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      |..++||||+|||+++|+++|+++|+.||+|.+|.|..+..   .+|+|||+|.++++|..|+ .|||..|+|++|+|..
T Consensus         4 ~~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~   83 (93)
T d1h2vz_           4 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDW   83 (93)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            45678999999999999999999999999999999998863   3579999999999999999 5999999999999987


Q ss_pred             CC
Q 024507           77 AE   78 (266)
Q Consensus        77 a~   78 (266)
                      +.
T Consensus        84 a~   85 (93)
T d1h2vz_          84 DA   85 (93)
T ss_dssp             ES
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=99.73  E-value=4.2e-18  Score=131.61  Aligned_cols=74  Identities=20%  Similarity=0.430  Sum_probs=69.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .+||||+|||+.+|+++|++||+.||+|.+|+|+.+.   .++|||||+|.+++++..||.|||..|+|+.|.|.++
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   94 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQAS   94 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHHHCCCEECCEEEEEEEC
Confidence            4799999999999999999999999999999999875   2578999999999999999999999999999999874

>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=99.72  E-value=3.9e-18  Score=124.59  Aligned_cols=72  Identities=13%  Similarity=0.228  Sum_probs=67.0

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .|||+|||+++||++|+++|+.||+|.+++|+.++.   ++|+|||+|.++++++.||.+++..|+|+.|.|.++
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 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHHTCCCCBTTBCCEECCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHhcCCCEECCCEEEeeEC
Confidence            489999999999999999999999999999998863   468999999999999999999999999999999753

>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=99.72  E-value=8.2e-18  Score=125.74  Aligned_cols=77  Identities=19%  Similarity=0.282  Sum_probs=70.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAENY   80 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~~   80 (266)
                      .++|||+|||+.+|+++|++||+.||+|.+|+|..+..  .+|+|||+|.++++|..||.++|..+.|+.|.|....+|
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~~~~~~~~g~~l~v~~~~dy   84 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKDDY   84 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHTCCCCEETTEECEEEEGGGC
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHHHCCCEECCEEEEEEEcCCC
Confidence            58999999999999999999999999999999988752  468999999999999999999999999999999876554

>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=99.72  E-value=8.7e-18  Score=123.66  Aligned_cols=75  Identities=24%  Similarity=0.395  Sum_probs=69.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.++.|..+..   .+++|||+|.++++|+.|+ .|||..|+|++|+|..+.
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~   80 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   80 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            36899999999999999999999999999999998753   4689999999999999999 699999999999998763

>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=99.72  E-value=3.3e-18  Score=126.01  Aligned_cols=73  Identities=18%  Similarity=0.255  Sum_probs=68.3

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      ++|||+|||+++||++|+++|+.||+|.+++|+.++.   ++|+|||+|.++++++.||.+|+..|+|+.|.|..+
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 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            4799999999999999999999999999999998763   578999999999999999999999999999999864

>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=99.72  E-value=1.7e-17  Score=121.86  Aligned_cols=73  Identities=22%  Similarity=0.356  Sum_probs=67.7

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ++|||+|||+.+++++|+++|+.||+|.+|+|..+..   .+|+|||+|.++++++.|+ .|||..|+|+.|.|..+
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~A   79 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYA   79 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            5799999999999999999999999999999998752   3579999999999999999 59999999999999875

>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=99.71  E-value=1.6e-17  Score=124.87  Aligned_cols=75  Identities=27%  Similarity=0.333  Sum_probs=69.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .+||||+|||+++|+++|+++|+.||+|.+|.|..+.. .+++|||+|++.++|..|+ .|||..|.|++|+|..+.
T Consensus         8 ~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~   84 (90)
T d2cqia1           8 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   84 (90)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            58999999999999999999999999999999998863 4789999999999999999 599999999999998753

>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=99.71  E-value=1.7e-17  Score=129.13  Aligned_cols=74  Identities=20%  Similarity=0.277  Sum_probs=70.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ++||||+|||+.+|+++|+++|+.||+|.+|++..++..+|+|||+|.+.++|..|+ .|||..|+|+.|.|..+
T Consensus         7 ~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a   81 (114)
T d2f9da1           7 NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYY   81 (114)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            589999999999999999999999999999999988777899999999999999999 69999999999999875

>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=99.71  E-value=6e-18  Score=122.20  Aligned_cols=72  Identities=17%  Similarity=0.248  Sum_probs=66.9

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .|||+|||+++||++|++||+.||.|..+.+..++.   ..++|||+|.++++++.||.|||..|+|++|+|..+
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHHCSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHhcCCCEECCeEEEEEEC
Confidence            489999999999999999999999999999987762   478999999999999999999999999999999864

>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=99.71  E-value=8.1e-18  Score=126.03  Aligned_cols=78  Identities=19%  Similarity=0.331  Sum_probs=71.0

Q ss_pred             CC-CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEE
Q 024507            1 MQ-QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSIT   75 (266)
Q Consensus         1 M~-~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~   75 (266)
                      |+ +.++|||+|||+++|+++|++||+.||+|.++.+..+.   ..+|+|||+|.++++++.|+ .|||..|.|++|.|.
T Consensus         1 m~~~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~   80 (90)
T d1x5sa1           1 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVD   80 (90)
T ss_dssp             CCCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEE
T ss_pred             CCCCCCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            55 57899999999999999999999999999999988765   25789999999999999999 699999999999998


Q ss_pred             eCC
Q 024507           76 PAE   78 (266)
Q Consensus        76 ~a~   78 (266)
                      .+.
T Consensus        81 ~a~   83 (90)
T d1x5sa1          81 QAG   83 (90)
T ss_dssp             EEE
T ss_pred             EcC
Confidence            864

>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=99.71  E-value=8e-18  Score=126.34  Aligned_cols=78  Identities=23%  Similarity=0.372  Sum_probs=71.0

Q ss_pred             CCC-ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEE
Q 024507            1 MQQ-TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSIT   75 (266)
Q Consensus         1 M~~-~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~   75 (266)
                      |+. .+||||+|||+.+|+++|+++|+.+|+|.+|.|..+.   ..+|+|||+|.++++|+.|+ .|||..|+|++|.|.
T Consensus         1 ma~~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~   80 (89)
T d2cqba1           1 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN   80 (89)
T ss_dssp             SCCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCCCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            554 5799999999999999999999999999999999875   24689999999999999999 699999999999998


Q ss_pred             eCC
Q 024507           76 PAE   78 (266)
Q Consensus        76 ~a~   78 (266)
                      .+.
T Consensus        81 ~a~   83 (89)
T d2cqba1          81 LAK   83 (89)
T ss_dssp             ECC
T ss_pred             EeC
Confidence            763

>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=99.71  E-value=1.3e-17  Score=129.40  Aligned_cols=74  Identities=18%  Similarity=0.273  Sum_probs=69.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+|+++|++||+.||+|.++.|+.+.   ..+|||||+|.++++|..||.+||..|+|+.|.|.++
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~~~~~~l~G~~i~V~~a   96 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRA   96 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHHhCCCeECCEEEEEEEC
Confidence            3799999999999999999999999999999999876   3578999999999999999999999999999999875

>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=99.71  E-value=3.2e-17  Score=124.09  Aligned_cols=76  Identities=21%  Similarity=0.364  Sum_probs=70.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC-CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY-GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~-~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+++++|+++|+.||+|.+|.+..+. +.+++|||+|.+++++..|+ .|||..|+|+.|.|..+.
T Consensus        10 ~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~   87 (93)
T d2cq3a1          10 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   87 (93)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecC
Confidence            35799999999999999999999999999999999887 45789999999999999999 699999999999999864

>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=99.71  E-value=1.1e-17  Score=125.49  Aligned_cols=75  Identities=20%  Similarity=0.305  Sum_probs=69.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..+|||+|||+.+|+++|+++|+.||.|.+++|..+.+ .+|+|||+|+++++|+.|+ .|||..|+|+.|.|..+.
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~   84 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK   84 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            46899999999999999999999999999999998874 4689999999999999999 699999999999999864

>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=99.71  E-value=1.8e-17  Score=122.09  Aligned_cols=73  Identities=25%  Similarity=0.236  Sum_probs=68.0

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +|||+|||+.+||++|+++|+.||+|.+|+|+.++.   ++++|||+|.+++++..|+ .|||..|.|++|+|..+.
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            799999999999999999999999999999998763   3589999999999999999 699999999999998763

>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=9.6e-18  Score=125.32  Aligned_cols=76  Identities=25%  Similarity=0.337  Sum_probs=67.7

Q ss_pred             CccEEEEeCCCCccc-HHHHHHHcccCCceeEEEEEecC----CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAH-EREIHEFFSFSGDIERIEILREY----GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~T-e~dL~efFs~cG~I~~I~l~~d~----~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      +.++|||+|||+++| |++|+++|+.||+|++|+|..++    ..+|+|||+|.+.++|+.||.|||..|+|+.|+|..+
T Consensus         3 e~~~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           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREISVSLA   82 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGGGTTEEETTEEEEEEEC
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHhcCCCEECCEEEEEEEc
Confidence            468999999999986 56699999999999999997653    2468999999999999999999999999999999975


Q ss_pred             C
Q 024507           78 E   78 (266)
Q Consensus        78 ~   78 (266)
                      .
T Consensus        83 ~   83 (86)
T d2ghpa3          83 D   83 (86)
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=99.71  E-value=2.6e-17  Score=125.65  Aligned_cols=77  Identities=19%  Similarity=0.277  Sum_probs=70.5

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +.++|||+|||+.+|+++|+++|+.||+|.+|+|+.+.   ..+++|||+|.++++|+.|| .|||..|+|+.|+|.++.
T Consensus         7 ~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~   86 (99)
T d1whwa_           7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            45789999999999999999999999999999999875   24689999999999999999 599999999999999875


Q ss_pred             C
Q 024507           79 N   79 (266)
Q Consensus        79 ~   79 (266)
                      .
T Consensus        87 ~   87 (99)
T d1whwa_          87 I   87 (99)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.70  E-value=2e-17  Score=121.41  Aligned_cols=73  Identities=18%  Similarity=0.209  Sum_probs=67.4

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .|||+|||+.+++++|+++|+.||+|.+++|..+.  ..+|+|||+|.++++|..|+ .|||..|+|++|+|..+.
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            59999999999999999999999999999999875  35689999999999999999 599999999999998753

>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=99.70  E-value=2.6e-17  Score=123.37  Aligned_cols=75  Identities=25%  Similarity=0.310  Sum_probs=68.7

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      ++++|||+|||+.+|+++|+++|+.||+|.+|+|..+..   ++++|||+|.++++|+.|+ .|||..|+|+.|+|..+
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   84 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC   84 (88)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            358999999999999999999999999999999998763   4689999999999999999 59999999999999864

>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=99.70  E-value=2.1e-17  Score=122.15  Aligned_cols=71  Identities=23%  Similarity=0.296  Sum_probs=66.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEE
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSI   74 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V   74 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|..+..   .+++|||+|.++++|+.|+ .|||..|+|+.|+|
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            47999999999999999999999999999999998763   3679999999999999999 59999999999987

>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=5.2e-17  Score=125.24  Aligned_cols=76  Identities=20%  Similarity=0.198  Sum_probs=68.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+.+||++|+++|+.||+|.+|.|+.+..   ++++|||+|.++++|+.||...+..|+|+.|.|..+..
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 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPIIDGRKANVNLAYL   88 (103)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSCEETTEECEEEESTT
T ss_pred             CcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEcCC
Confidence            46799999999999999999999999999999998763   57899999999999999996555689999999988754

>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=99.69  E-value=5.9e-17  Score=120.05  Aligned_cols=72  Identities=24%  Similarity=0.325  Sum_probs=66.2

Q ss_pred             EEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC------CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG------QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         7 V~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~------~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +||+|||+++|+++|+++|+.||+|.++.|..+..      ++|+|||+|.++++|..|+ .|||..|+|+.|.|..+.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~   79 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   79 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            79999999999999999999999999999998752      2579999999999999999 699999999999998764

>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=99.68  E-value=3.7e-17  Score=121.98  Aligned_cols=74  Identities=14%  Similarity=0.317  Sum_probs=68.8

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      +.|||+|||+.+||++|+++|+.||+|.+|+|..++   ..+++|||+|.++++|..|+. |||..|+|++|.|..+.
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~   79 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS   79 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            579999999999999999999999999999999875   347899999999999999995 99999999999999864

>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=99.68  E-value=7.4e-17  Score=122.35  Aligned_cols=76  Identities=21%  Similarity=0.259  Sum_probs=70.4

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|+++|+.||.|..+.+..+...+++|||+|+++++++.|+ .|||..|.|+.|+|..+.
T Consensus        13 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~   89 (95)
T d1x4aa1          13 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   89 (95)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecc
Confidence            4578999999999999999999999999999999877767899999999999999999 599999999999998754

>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=99.68  E-value=4.8e-17  Score=123.25  Aligned_cols=75  Identities=16%  Similarity=0.280  Sum_probs=69.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+|.|..+.   ..+|+|||+|.++++|+.|+ .|||..|+|+.|+|..+.
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~   87 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKAS   87 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETT
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            4799999999999999999999999999999998875   24689999999999999999 699999999999998864

>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=99.68  E-value=9e-17  Score=120.74  Aligned_cols=76  Identities=25%  Similarity=0.378  Sum_probs=69.6

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Lng~~l~g~~I~V~~a~   78 (266)
                      +.++|||+|||+.+|+++|+++|+.||+|.+|.|..+..   .+|+|||+|.+.++|+.|+. |||..|+|+.|.|..+.
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            457999999999999999999999999999999998763   36799999999999999995 99999999999998753

>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=99.68  E-value=3.2e-17  Score=125.94  Aligned_cols=75  Identities=20%  Similarity=0.319  Sum_probs=69.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .+||||+|||+.+|+++|++||+.||+|.+|.|..+..   .+|||||+|.+.++|+.|+ .|||..|+|+.|.|..+.
T Consensus         8 ~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~   86 (104)
T d1p1ta_           8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAA   86 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETT
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            47999999999999999999999999999999998763   3579999999999999999 599999999999998854

>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=99.68  E-value=5.8e-17  Score=119.06  Aligned_cols=73  Identities=12%  Similarity=0.126  Sum_probs=65.0

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      +||||+|||+++|+++|+++|+.||.|..+.+..+.   .++|+|||+|.++++|..|+ .|||..|+|++|.|..+
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a   78 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVS   78 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            699999999999999999999999999988876554   35789999999999999999 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=99.68  E-value=1e-17  Score=126.86  Aligned_cols=76  Identities=17%  Similarity=0.197  Sum_probs=69.2

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.+|+++|+++|+.||.|.++.|..+.  ..+++|||+|.++++++.||.|||..|+|++|.|..+.
T Consensus        12 ~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~~~g~~~~g~~i~V~~ak   89 (91)
T d1fjeb1          12 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK   89 (91)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECCC
T ss_pred             CCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHhcCCcEECCEEEEEEecC
Confidence            35799999999999999999999999999999886553  45789999999999999999999999999999998764

>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=2.8e-17  Score=120.68  Aligned_cols=72  Identities=22%  Similarity=0.282  Sum_probs=66.7

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .|||+|||+++|+++|+++|+.||+|.+|.|+.++   .++|+|||+|.++++++.||.+++..|+|+.|.|..+
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 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTCSSCCBTTBCCEEECC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHhhCCCEECCEEeEEEEC
Confidence            48999999999999999999999999999999886   3578999999999999999999999999999998753

>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=99.67  E-value=1.4e-18  Score=130.53  Aligned_cols=81  Identities=20%  Similarity=0.313  Sum_probs=72.3

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--------CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEE
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--------GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSIT   75 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--------~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~   75 (266)
                      .|+|||+|||+.+||++|++||+.||.|.++.+....        ..+++|||+|.++++++.|+.|||..|.|+.|+|.
T Consensus         1 aRrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           1 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIR   80 (90)
T ss_dssp             CCEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGGGSSCCSSSSCCCCB
T ss_pred             CCEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHhhCCcEECCEEEEEC
Confidence            4799999999999999999999999999887775322        24789999999999999999999999999999999


Q ss_pred             eCCCCCCCC
Q 024507           76 PAENYVPKP   84 (266)
Q Consensus        76 ~a~~~~~~P   84 (266)
                      ...+|.+||
T Consensus        81 r~k~~~p~p   89 (90)
T d1u2fa_          81 RPHDYQPLP   89 (90)
T ss_dssp             CTTCCSCCC
T ss_pred             CCCCCCCcc
Confidence            888887775

>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=99.67  E-value=1.1e-16  Score=118.83  Aligned_cols=75  Identities=21%  Similarity=0.290  Sum_probs=67.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecC--eeEEEEe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVD--QIVSITP   76 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g--~~I~V~~   76 (266)
                      ..++|||+|||+.++|++|+++|+.||+|.+++|+.++.   ++|+|||+|.++++|..|+ .|||..+.|  ++|.|..
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            357899999999999999999999999999999998762   4689999999999999999 599999987  8899976


Q ss_pred             C
Q 024507           77 A   77 (266)
Q Consensus        77 a   77 (266)
                      +
T Consensus        85 A   85 (85)
T d1b7fa2          85 A   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.66  E-value=9.3e-17  Score=129.11  Aligned_cols=76  Identities=21%  Similarity=0.376  Sum_probs=70.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+|||+++|+++|+++|+.||+|++|.|..+..   .+|+|||+|.+.++|..|| .|||..|+|+.|+|..+..
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            47899999999999999999999999999999998863   3679999999999999999 5999999999999998754

>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=99.66  E-value=1.3e-16  Score=119.36  Aligned_cols=73  Identities=19%  Similarity=0.229  Sum_probs=67.5

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+++++++|+++|+.||+|.+|+|.++   +++|||+|+++++|+.|+ .|||..|+|+.|+|..+.
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~---k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~   80 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD---KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC   80 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT---TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeecc---cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            3468999999999999999999999999999999865   579999999999999999 599999999999999753

>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=99.66  E-value=1.3e-16  Score=118.80  Aligned_cols=73  Identities=19%  Similarity=0.266  Sum_probs=66.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCe--eEEEEe
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQ--IVSITP   76 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~--~I~V~~   76 (266)
                      .++|||+|||+.+|+++|+++|+.||+|.+++|+.++.   .+++|||+|.++++++.|+ .|||..+.|+  +|.|..
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~   84 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKF   84 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEe
Confidence            47899999999999999999999999999999998752   4679999999999999999 5999999984  588764

>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=5.9e-17  Score=122.00  Aligned_cols=72  Identities=19%  Similarity=0.284  Sum_probs=65.7

Q ss_pred             ccEEEEeCCCCcccHHHH---HHHcccCCceeEEEEEecCC------CCcEEEEEecChHHHHHHH-HhcCCeecCeeEE
Q 024507            4 TRTVQVKNVSDLAHEREI---HEFFSFSGDIERIEILREYG------QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVS   73 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL---~efFs~cG~I~~I~l~~d~~------~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~   73 (266)
                      .++|||+|||+.+++++|   +++|+.||+|.+|.|..++.      ..++|||+|+++++|..|+ .|||..|+|++|+
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   78999999999999998752      2479999999999999999 5999999999999


Q ss_pred             EE
Q 024507           74 IT   75 (266)
Q Consensus        74 V~   75 (266)
                      |+
T Consensus        88 vS   89 (89)
T d2cpia1          88 AS   89 (89)
T ss_dssp             EE
T ss_pred             EC
Confidence            85

>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=99.66  E-value=1.4e-16  Score=120.16  Aligned_cols=77  Identities=21%  Similarity=0.280  Sum_probs=68.7

Q ss_pred             CCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHH-hc------CCeecCee
Q 024507            2 QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALL-LS------GATIVDQI   71 (266)
Q Consensus         2 ~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALl-Ln------g~~l~g~~   71 (266)
                      .+.+||||+|||+.+|+++|++||+.||+|.++.+..+..   ++|+|||+|.+++++..||. ||      |..|.|+.
T Consensus         6 ~~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~   85 (98)
T d1x4ha1           6 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQ   85 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCE
T ss_pred             CCCCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEE
Confidence            4578999999999999999999999999999999988762   46899999999999999994 55      67899999


Q ss_pred             EEEEeCC
Q 024507           72 VSITPAE   78 (266)
Q Consensus        72 I~V~~a~   78 (266)
                      |.|..+.
T Consensus        86 l~v~~a~   92 (98)
T d1x4ha1          86 LKVDLAV   92 (98)
T ss_dssp             EEEECCC
T ss_pred             EEEEECC
Confidence            9998753

>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=99.66  E-value=1.3e-16  Score=120.99  Aligned_cols=76  Identities=22%  Similarity=0.374  Sum_probs=68.9

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC----CCCcEEEEEecChHHHHHHH-Hh-cCCeecCeeEEEEe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY----GQSKTAFVTFKDAKALEIAL-LL-SGATIVDQIVSITP   76 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~----~~~~~AyVtF~~~~aa~tAL-lL-ng~~l~g~~I~V~~   76 (266)
                      ..++|||+|||+.+++++|+++|+.||.|.+|+|+.+.    ..+|+|||+|.++++|..|+ .| ||..|+|++|.|..
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            46799999999999999999999999999999998764    24689999999999999999 46 89999999999988


Q ss_pred             CC
Q 024507           77 AE   78 (266)
Q Consensus        77 a~   78 (266)
                      +.
T Consensus        87 A~   88 (94)
T d2cpha1          87 AD   88 (94)
T ss_dssp             CC
T ss_pred             cC
Confidence            64

>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=99.66  E-value=2.1e-16  Score=121.19  Aligned_cols=74  Identities=23%  Similarity=0.290  Sum_probs=66.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC----CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG----QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~----~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+||++|++||+.|| |.++.++.+..    .+++|||+|.++++|++|+.|||..|+|+.|+|..+.
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-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVAD   92 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            47999999999999999999999999 77888876642    3579999999999999999999999999999998764

>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=99.66  E-value=9.4e-17  Score=123.71  Aligned_cols=73  Identities=22%  Similarity=0.179  Sum_probs=67.1

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .+||||+|||+.+++++|++||+.||+|.+|.|..   .+++|||+|+++++|..|+ .|||..|.|++|.|..+..
T Consensus        10 ~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~---~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~   83 (111)
T d1whxa_          10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE---GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPI   83 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS---SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEET
T ss_pred             CCEEEEECCCCCCCHHHHHhhhhccCCccEEEeec---cCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCC
Confidence            47899999999999999999999999999999953   3679999999999999999 6999999999999987654

>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=9.8e-17  Score=123.28  Aligned_cols=74  Identities=20%  Similarity=0.170  Sum_probs=66.6

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      +++|||+|||+++||++|++||+.|| |..|.+..+..  .+++|||+|+++++|+.||.|||..|+||.|.|..+.
T Consensus        15 ~~~v~v~nLp~~~te~dl~~~F~~~~-~~~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~I~V~~s~   90 (102)
T d1weza_          15 GHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNS   90 (102)
T ss_dssp             SCEEEEESCCTTCCHHHHHHSSCSCC-CSEEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEEC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHhccC-cceeeeEEecCCcceEEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            57999999999999999999999998 55788877752  4689999999999999999999999999999998754

>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=99.65  E-value=8.7e-17  Score=120.49  Aligned_cols=74  Identities=30%  Similarity=0.292  Sum_probs=66.8

Q ss_pred             CCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            2 QQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         2 ~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      +..++|||+|||+.+||++|+++|+.||+|.+|++..+  .++||||+|+++++|+.||. ++..|+|+.|.|..+.
T Consensus         3 ~~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~--~~gfafV~f~~~~~a~~a~~-~~~~i~g~~l~v~~a~   76 (88)
T d1wf0a_           3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP--FRAFAFVTFADDQIAQSLCG-EDLIIKGISVHISNAE   76 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS--CCSCCEEECSCHHHHHHTTT-CEEEETTEEEEEECCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeec--cCceEEEEECCHHHHHHHHh-CCCEECCEEeEEEeCC
Confidence            45689999999999999999999999999999987643  46899999999999999986 8899999999998764

>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=99.65  E-value=3.2e-16  Score=118.54  Aligned_cols=74  Identities=15%  Similarity=0.232  Sum_probs=66.8

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      ..++|||+|||+++|+++|+++|+.||+|.+|+|+.+..   ++|||||+|.++++++.||. ++..|+|+.|.|..+
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~-~~~~l~Gr~i~v~~a   83 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMIDGRWCDCKLP   83 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEETTEEEEEECC
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHh-cCCccCCEEeEEEeC
Confidence            357899999999999999999999999999999999863   46899999999999999997 455899999999865

>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=99.65  E-value=8.1e-17  Score=123.54  Aligned_cols=75  Identities=16%  Similarity=0.259  Sum_probs=68.1

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC--CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG--QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~--~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      +.++|||+|||+++|+++|+++|+.||+|.++.+..+..  ..++|||+|.++++|..|+ .|||..|.|+++.|.++
T Consensus        17 ~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~   94 (101)
T d1x5oa1          17 DPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPT   94 (101)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCC
Confidence            357999999999999999999999999999999988753  4689999999999999999 69999999999888654

>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=99.65  E-value=2.5e-16  Score=121.15  Aligned_cols=75  Identities=9%  Similarity=0.201  Sum_probs=68.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +++|||+|||+.+++++|+++|+.||.|.++.+..+..   .+|+|||+|+++++|+.|| .|||..|+|+.|.|..+.
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~   96 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKR   96 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeC
Confidence            46899999999999999999999999999999998763   3579999999999999999 699999999999998753

>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=99.64  E-value=2.9e-16  Score=120.78  Aligned_cols=74  Identities=22%  Similarity=0.401  Sum_probs=67.8

Q ss_pred             ccEEEEeCCCCc-ccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDL-AHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~-~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~~   79 (266)
                      .++|||+||+|. +|+++|+++|+.||+|.+|.|..+.  +++|||+|+++++|..|+ .|||..|.|+.|+|..+..
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~~   77 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK--KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKH   77 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT--SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc--cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            579999999775 8999999999999999999998764  679999999999999999 6999999999999998653

>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=99.64  E-value=3.5e-16  Score=119.31  Aligned_cols=71  Identities=23%  Similarity=0.287  Sum_probs=66.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+++++|+++|+.||+|.+|+|.++   +|+|||+|.++++|+.|+ .|||..|+|+.|+|..+
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~---kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~a   89 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE---KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWG   89 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT---TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec---ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            478999999999999999999999999999999976   679999999999999999 69999999999999864

>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=99.63  E-value=2.4e-16  Score=116.25  Aligned_cols=72  Identities=21%  Similarity=0.326  Sum_probs=64.6

Q ss_pred             EEEeCCCCcccHHHHHHHcccCCceeEE-EEEecCC---CCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            7 VQVKNVSDLAHEREIHEFFSFSGDIERI-EILREYG---QSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         7 V~V~NLs~~~Te~dL~efFs~cG~I~~I-~l~~d~~---~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      |||+|||+++|+++|+++|+.||.|.++ .+..+..   ++|+|||+|+++++|+.|+ .|||..|+|++|+|..+.
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~   77 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAF   77 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEec
Confidence            7999999999999999999999999764 6776652   4689999999999999999 599999999999999864

>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=99.63  E-value=3.7e-16  Score=120.25  Aligned_cols=75  Identities=21%  Similarity=0.162  Sum_probs=66.9

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      ..+|||+|||+++||+||++||+.||.|..+.++.++   ..+|+|||+|.++++|+.||.||+..|+||.|.|.++.
T Consensus        15 ~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~~~~~~i~gR~i~V~~~~   92 (104)
T d1wg5a_          15 DGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSS   92 (104)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEEEC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHhhCCCEEcceEEEEEECC
Confidence            4689999999999999999999999998876555544   35689999999999999999999999999999998864

>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=99.63  E-value=8e-16  Score=114.22  Aligned_cols=74  Identities=20%  Similarity=0.205  Sum_probs=67.8

Q ss_pred             CCCccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            1 MQQTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         1 M~~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      |+..++|||+|||+.+|+++|+++|+.||.|..+++...   +++|||+|.++++|..|+ .|||..|+|+.|.|..+
T Consensus         5 ~~~~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~~---rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~a   79 (86)
T d2cpda1           5 MSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI---RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLA   79 (86)
T ss_dssp             SSCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC---SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECC
T ss_pred             ccCCCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEccc---cEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            566789999999999999999999999999999888654   679999999999999999 59999999999999864

>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=99.63  E-value=2.3e-16  Score=120.88  Aligned_cols=75  Identities=12%  Similarity=0.105  Sum_probs=66.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeE-EEEEecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIER-IEILREY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~-I~l~~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+++|+++|++||+.||.|.. +.+..+.  ..+|+|||+|.++++|+.||.|||..|+|+.|.|.++.
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 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVVT   85 (103)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEEEC
T ss_pred             ceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHhcCCCeECCcEEEEEECC
Confidence            468999999999999999999999999976 5554443  35799999999999999999999999999999998763

>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=99.63  E-value=8.5e-17  Score=120.31  Aligned_cols=68  Identities=15%  Similarity=0.214  Sum_probs=63.1

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      +|||+|||+.+|+++|+++|+.||+|.++.+..+    |+|||+|.++++|+.|| .|||..|.|+.|.|...
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~----g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~   70 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYI   70 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT----SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBC
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhccccccccccc----ceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEE
Confidence            6999999999999999999999999999998754    69999999999999999 69999999999888653

>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=99.62  E-value=5.4e-16  Score=117.68  Aligned_cols=77  Identities=17%  Similarity=0.320  Sum_probs=66.5

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCcee--------EEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCe
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIE--------RIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQ   70 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~--------~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~   70 (266)
                      +.++|||+|||+.+|+++|++||+.||.|.        .+.+..+.   ..+++|||+|.++++|..|+ .|||..|+|+
T Consensus         7 ~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr   86 (101)
T d2cpea1           7 DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQGS   86 (101)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECCE
Confidence            357999999999999999999999999985        34444443   24689999999999999999 5999999999


Q ss_pred             eEEEEeCCC
Q 024507           71 IVSITPAEN   79 (266)
Q Consensus        71 ~I~V~~a~~   79 (266)
                      +|.|..+..
T Consensus        87 ~i~V~~a~~   95 (101)
T d2cpea1          87 KLKVSLARK   95 (101)
T ss_dssp             ECEEECSSC
T ss_pred             EEEEEEcCC
Confidence            999998753

>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=99.61  E-value=2.5e-16  Score=113.14  Aligned_cols=67  Identities=13%  Similarity=0.231  Sum_probs=62.1

Q ss_pred             EEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEE
Q 024507            7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVS   73 (266)
Q Consensus         7 V~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~   73 (266)
                      |||+|||+.+|+++|+++|+.||.|.++.+..++   ..+++|||+|.++++|+.|+ .|||..|+|+.|+
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            7999999999999999999999999999999876   25689999999999999999 6999999999764

>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=99.60  E-value=1.6e-15  Score=113.02  Aligned_cols=74  Identities=15%  Similarity=0.224  Sum_probs=66.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCee-cCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATI-VDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l-~g~~I~V~~a~   78 (266)
                      .+||||+|||+.+|+++|+++|+.||.|..+.+.... .+++|||+|+++++|..|+ .|||..| +|++|+|..+.
T Consensus        10 s~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~~-~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk   85 (88)
T d2adca2          10 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK-DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK   85 (88)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSS-STTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECS
T ss_pred             CCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeec-ccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCC
Confidence            5799999999999999999999999999988876553 4689999999999999999 6999998 58999998653

>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=99.60  E-value=1e-15  Score=113.43  Aligned_cols=74  Identities=19%  Similarity=0.163  Sum_probs=64.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeE-EEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIER-IEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~-I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||++++++||++||+.||.|.. +.+..+.  .++|+|||+|.++++|+.|+ .|||..|+||+|+|+.+
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            357999999999999999999999999875 5565554  24689999999999999999 59999999999999863

>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=99.60  E-value=2e-15  Score=115.58  Aligned_cols=71  Identities=21%  Similarity=0.318  Sum_probs=64.8

Q ss_pred             CccEEEEeCCCC-cccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSD-LAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~-~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +.++|||+||++ .+++++|+++|+.||+|.+|+|.     +++|||+|+++++|+.|+ .|||..|.|+.|+|..+.
T Consensus        14 ~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~-----rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   86 (98)
T d1wf2a_          14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH-----KGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAA   86 (98)
T ss_dssp             CCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEE-----TEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETT
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEe-----CCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            457899999975 68899999999999999999994     679999999999999999 599999999999999864

>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=3.7e-16  Score=122.02  Aligned_cols=75  Identities=16%  Similarity=0.216  Sum_probs=65.4

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEE-ecC--CCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEIL-REY--GQSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~-~d~--~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      ..++|||+|||+.+|+++|++||+.||.|..+.++ .+.  ..+|+|||+|.++++|+.||.|||..|+||.|.|.++
T Consensus        17 ~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~~~~~~i~gR~i~V~~~   94 (112)
T d1wela1          17 AGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPI   94 (112)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEE
T ss_pred             CCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHHcCCCcCCCEEEEEEEc
Confidence            35799999999999999999999999998764443 332  3468999999999999999999999999999999875

>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=99.59  E-value=1.2e-15  Score=116.91  Aligned_cols=71  Identities=13%  Similarity=0.177  Sum_probs=65.7

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++|||+|||+.+++++|++||+.||+|++++|.+    .++|||+|.++++|+.|| .|||..|.|+.|.|....
T Consensus        15 ~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~----~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~   86 (98)
T d1wg4a_          15 DFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK----DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIR   86 (98)
T ss_dssp             SCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET----TTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhhcccccccccc----cceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEe
Confidence            47899999999999999999999999999999974    469999999999999999 699999999999997753

>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=99.58  E-value=1e-15  Score=115.01  Aligned_cols=75  Identities=27%  Similarity=0.377  Sum_probs=67.4

Q ss_pred             ccEEEEeCCCCcccHHHHHH----HcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHE----FFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~e----fFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .+||||+|||+.+++++|++    +|+.||+|.+|.+......+++|||+|+++++|..|+ .|||..|+|+.|.|..+.
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            47999999999999999864    6899999999998765445789999999999999999 699999999999998864

>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=99.58  E-value=2.4e-15  Score=111.19  Aligned_cols=72  Identities=19%  Similarity=0.279  Sum_probs=65.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeec-CeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIV-DQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~-g~~I~V~~a   77 (266)
                      .+||||+|||+.+|+++|+++|+.||.|.+|++.++  .+++|||+|.++++|..|+ .|||..|. |++|.|..+
T Consensus         8 ~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~--~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~a   81 (83)
T d2b0ga1           8 NQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPN--RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFA   81 (83)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTT--TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEEC
T ss_pred             CCEEEEECCCCCCCHHHHHhhhccCccEEEeeeecc--cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEe
Confidence            479999999999999999999999999999999865  3679999999999999999 59999995 688999765

>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=99.58  E-value=2e-15  Score=110.83  Aligned_cols=71  Identities=20%  Similarity=0.250  Sum_probs=65.0

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .++||||+|++  +||++|+++|+.||+|.+|.+..+   +++|||+|+++++|..|+ .|||..|+|+.|+|..+.
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~---~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   75 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPP---RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR   75 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETT---TTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECC
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhccCccceeeeccC---CCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            46899999995  899999999999999999999854   579999999999999999 699999999999998763

>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=99.58  E-value=2e-15  Score=113.17  Aligned_cols=72  Identities=17%  Similarity=0.252  Sum_probs=63.3

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      ..++|||+|||+.++++||+++|+.|| +..+.+..   .+++|||+|.++++|+.|+ .|||..|.|+.|.|..+.
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~~---~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~   76 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVDR---NKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQP   76 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEEG---GGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcC-ceeeeeec---cCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            457999999999999999999999999 44455433   3679999999999999999 699999999999999864

>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=99.57  E-value=1.5e-15  Score=115.15  Aligned_cols=74  Identities=27%  Similarity=0.267  Sum_probs=65.5

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +.++|||+|||+++|+++|+++|+.||.|..+..  .....++|||+|.+.++|+.|+ .|||..|+|++|.|..+.
T Consensus        15 ~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~--~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~   89 (96)
T d1fjca_          15 AARTLLAKNLSFNITEDELKEVFEDALEIRLVSQ--DGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG   89 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEE--TTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcccceeeee--cCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            4689999999999999999999999999877653  2234789999999999999999 599999999999998753

>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=99.57  E-value=1.4e-15  Score=112.10  Aligned_cols=71  Identities=20%  Similarity=0.228  Sum_probs=64.5

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCC-eecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGA-TIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~-~l~g~~I~V~~a~   78 (266)
                      .+|||+|||+++|+++|+++|+.||.|.++.+...   +++|||+|.++++|..|+ .|||. .|.|++|.|..+.
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~---rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~   74 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLK---SGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSV   74 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEE---TTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEecc---cceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcC
Confidence            36999999999999999999999999988888765   579999999999999999 59996 6999999998753

>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=99.54  E-value=1.4e-15  Score=115.69  Aligned_cols=75  Identities=23%  Similarity=0.293  Sum_probs=68.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC---CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY---GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~---~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      .+||||+|||+.+++++|+++|+.||.|.++.+..+.   ...++|||+|.++++|..|+ .|||..|.|++|.|..+.
T Consensus        18 s~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak   96 (102)
T d2cpxa1          18 NKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK   96 (102)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCC
Confidence            4799999999999999999999999999999887653   35789999999999999999 699999999999998764

>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=99.53  E-value=2e-14  Score=107.03  Aligned_cols=71  Identities=15%  Similarity=0.213  Sum_probs=65.2

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH---hcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL---LSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl---Lng~~l~g~~I~V~~a   77 (266)
                      +++|||+|||+.+++++|+++|+.+|.|.+|++..+   +++|||+|.++++|+.|+.   +++..|.|++|+|..+
T Consensus         8 s~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~---~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~s   81 (88)
T d2cq1a1           8 SRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG---KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYS   81 (88)
T ss_dssp             CSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT---TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhccccccccccccc---ceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEEC
Confidence            589999999999999999999999999999999865   5799999999999999983   5789999999999875

>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=99.53  E-value=1.7e-14  Score=105.11  Aligned_cols=68  Identities=16%  Similarity=0.247  Sum_probs=61.1

Q ss_pred             EEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507            7 VQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus         7 V~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      |||+|||+++++++|+++|+.+| |..+.+.   ..+++|||+|.++++|+.|+ .|||..|.|++|.|..+.
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~---~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~   69 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVD---KYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQP   69 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEE---TTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECC
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeec---ccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeC
Confidence            79999999999999999999999 5666654   34789999999999999999 699999999999999864

>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=99.52  E-value=1.3e-14  Score=110.34  Aligned_cols=72  Identities=15%  Similarity=0.203  Sum_probs=65.5

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCe--eEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQ--IVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~--~I~V~~a~   78 (266)
                      .++|||+|||+++++++|+++|+.||+|.+|++.++   +++|||+|.+.++|+.|+ .|||..|+|+  +|+|..+.
T Consensus        17 s~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~---~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak   91 (97)
T d1whya_          17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG---DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAK   91 (97)
T ss_dssp             CSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS---SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeecc---ccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCC
Confidence            489999999999999999999999999999999865   569999999999999999 6999999874  79988754

>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=99.52  E-value=1.6e-14  Score=111.54  Aligned_cols=74  Identities=19%  Similarity=0.205  Sum_probs=66.4

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCee--cCeeEEEEeCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATI--VDQIVSITPAE   78 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l--~g~~I~V~~a~   78 (266)
                      ..+|||+|||+.+||++|+++|+.||.|.+|.|..++ .+++|||+|+++++|+.|+ .|||..|  .++.|.|..+.
T Consensus         7 ~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~-~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~   83 (108)
T d2adba1           7 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN-NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSK   83 (108)
T ss_dssp             EEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEET-TEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECS
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeC-CCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecC
Confidence            3579999999999999999999999999999998775 4689999999999999999 6999999  57788887654

>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=99.51  E-value=1.9e-14  Score=108.87  Aligned_cols=74  Identities=15%  Similarity=0.185  Sum_probs=65.0

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCc-eeEEEEEecC----CCCcEEEEEecChHHHHHHH-Hhc--CCeecCeeEEEEe
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGD-IERIEILREY----GQSKTAFVTFKDAKALEIAL-LLS--GATIVDQIVSITP   76 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~-I~~I~l~~d~----~~~~~AyVtF~~~~aa~tAL-lLn--g~~l~g~~I~V~~   76 (266)
                      +.|||+|||+.+|+++|+++|+.+|+ |++|.|..+.    ..+|+|||+|.++++|..|+ .|+  +..+.|++|.|..
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~   81 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDW   81 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEE
Confidence            57999999999999999999999996 9999998764    24689999999999999999 465  4566899999998


Q ss_pred             CC
Q 024507           77 AE   78 (266)
Q Consensus        77 a~   78 (266)
                      +.
T Consensus        82 A~   83 (96)
T d2disa1          82 AE   83 (96)
T ss_dssp             SC
T ss_pred             cC
Confidence            74

>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=99.50  E-value=2e-14  Score=109.95  Aligned_cols=73  Identities=14%  Similarity=0.224  Sum_probs=66.0

Q ss_pred             ccEEEEeCCCCc-ccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH---HhcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDL-AHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL---LLSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~-~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL---lLng~~l~g~~I~V~~a~~   79 (266)
                      +++|||+|||.. +|+++|+++|+.||+|.+|.+.++   +++|||+|+++++|..|+   .+++..|+|+.|+|..+..
T Consensus        18 ~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~---k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~~   94 (99)
T d1x4fa1          18 GRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM---KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEK   94 (99)
T ss_dssp             CCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT---TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECS
T ss_pred             CCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeec---CCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcCC
Confidence            579999999975 899999999999999999999865   579999999999999998   4889999999999987643

>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=99.50  E-value=4.3e-14  Score=116.02  Aligned_cols=74  Identities=24%  Similarity=0.428  Sum_probs=69.0

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPA   77 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a   77 (266)
                      .++|||+|||+.+|+++|+++|+.||.|..+.+..+..   .+++|||+|.++++|..||.++|..|+|+.|.|.++
T Consensus        97 ~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~~~~~~~~G~~i~V~~A  173 (183)
T d1u1qa_          97 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA  173 (183)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHTSSCEEETTEEEEEEEC
T ss_pred             cceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHHHHHhCCCeECCEEEEEEec
Confidence            47999999999999999999999999999999998763   457999999999999999999999999999999875

>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=99.49  E-value=3.9e-14  Score=105.45  Aligned_cols=72  Identities=14%  Similarity=0.164  Sum_probs=62.8

Q ss_pred             ccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCee-EEEEeCCC
Q 024507            4 TRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQI-VSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~-I~V~~a~~   79 (266)
                      .+.|+|.++||.++++.| ++|+.||+|.++++.++   +++|||+|.++++|+.||.|||..|+|+. |.|.|+.+
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~~~---~~~~fV~f~~~~~A~~Al~~nG~~~~g~~~vgV~~~~~   76 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYGNILKHVMSNT---GNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKPCID   76 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEECSS---SSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEECCC
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhhhhheEEecCC---CCEEEEEEcccHHHHHHHhcCCCeECCcEEEEEEeCCC
Confidence            478999999999996555 57999999999998644   67999999999999999999999999985 67988754

>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=99.48  E-value=5e-14  Score=105.90  Aligned_cols=73  Identities=15%  Similarity=0.188  Sum_probs=65.3

Q ss_pred             ccEEEEeCCCCc-ccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHH---hcCCeecCeeEEEEeCCC
Q 024507            4 TRTVQVKNVSDL-AHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALL---LSGATIVDQIVSITPAEN   79 (266)
Q Consensus         4 ~~TV~V~NLs~~-~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALl---Lng~~l~g~~I~V~~a~~   79 (266)
                      +++|||+|||.. +|++||+++|+.||+|.+|.|..+   .++|||+|++.++|..|+.   +++..+.|++|+|..+..
T Consensus         8 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           8 RRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK---INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQK   84 (89)
T ss_dssp             CCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS---SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECC
T ss_pred             CcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeecc---ceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECCC
Confidence            589999999986 899999999999999999999865   4689999999999999983   478899999999987653

>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=99.47  E-value=9.5e-14  Score=106.63  Aligned_cols=74  Identities=15%  Similarity=0.193  Sum_probs=65.9

Q ss_pred             CccEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-Hh--cCCeecCeeEEEEeCCC
Q 024507            3 QTRTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LL--SGATIVDQIVSITPAEN   79 (266)
Q Consensus         3 ~~~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lL--ng~~l~g~~I~V~~a~~   79 (266)
                      ..++|||+|||+.+||++|+++|+.||+|.+|.|.++   +++|||+|+++++|..|+ .|  ++..+.|++|+|..+..
T Consensus        14 ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~---k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s~~   90 (104)
T d1wexa_          14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF---KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYSTS   90 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT---TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEec---ceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEcCC
Confidence            3579999999999999999999999999999999854   679999999999999999 34  66788999999987643

>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=99.40  E-value=4.4e-13  Score=109.87  Aligned_cols=74  Identities=15%  Similarity=0.236  Sum_probs=68.7

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC---CCcEEEEEecChHHHHHHHHhcCCeecCeeEEEEeCC
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG---QSKTAFVTFKDAKALEIALLLSGATIVDQIVSITPAE   78 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~---~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~~a~   78 (266)
                      |+|||+|||+.+|+++|+++|+.||.|.++.+..+..   .+++|||+|.+++++..|+.+++..+.++.+.+.+..
T Consensus         7 r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~~~~~~~~~~~~~~~   83 (183)
T d1u1qa_           7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAV   83 (183)
T ss_dssp             HEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHHhcCCcccccchhhhhhh
Confidence            7999999999999999999999999999999998762   3579999999999999999999999999999998754

>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=99.39  E-value=7e-13  Score=102.51  Aligned_cols=74  Identities=11%  Similarity=0.092  Sum_probs=65.9

Q ss_pred             CCccEEEEeCCCCcc-cH----HHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEE
Q 024507            2 QQTRTVQVKNVSDLA-HE----REIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSIT   75 (266)
Q Consensus         2 ~~~~TV~V~NLs~~~-Te----~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~   75 (266)
                      +..+++||+||++.+ ++    ++|+++|+.||+|.++.+.+.   +++|||+|+++++|..|+ .|||..|.|++|+|.
T Consensus         3 ~~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k~---~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~   79 (104)
T d1weya_           3 SGSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKS---FKRVRINFSNPLSAADARLRLHKTEFLGKEMKLY   79 (104)
T ss_dssp             SCCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETT---TTEEEEECSSTTHHHHHHHTSTTSEETTEECEEE
T ss_pred             CCCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEecC---CCEEEEEECCHHHHHHHHHHhcccccCCCEeEEe
Confidence            567899999999987 33    569999999999999999854   679999999999999999 599999999999998


Q ss_pred             eCC
Q 024507           76 PAE   78 (266)
Q Consensus        76 ~a~   78 (266)
                      .+.
T Consensus        80 ~a~   82 (104)
T d1weya_          80 FAQ   82 (104)
T ss_dssp             CCC
T ss_pred             ecc
Confidence            764

>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=99.34  E-value=6.1e-13  Score=103.79  Aligned_cols=69  Identities=19%  Similarity=0.225  Sum_probs=60.2

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecCh-HHHHHHH-HhcCCeecCeeEEEEe
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDA-KALEIAL-LLSGATIVDQIVSITP   76 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~-~aa~tAL-lLng~~l~g~~I~V~~   76 (266)
                      ..+||+|||+.+|+++|+++|+.||+|.+|+|+.+   .++|||+|.++ ++|..|+ .|||..|.++.+.|..
T Consensus        12 ~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~---kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~   82 (113)
T d1owxa_          12 LLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG---AKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTW   82 (113)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTT---CSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEE
T ss_pred             eEEEECCCCCCCCHHHHHHHHHhcCChheEEEecC---CceEEEEecCcHHHHHHHHHHhcCCceecCceEEEE
Confidence            46799999999999999999999999999999854   67999999996 6677666 7999999888777654

>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=99.26  E-value=2.8e-12  Score=98.46  Aligned_cols=68  Identities=16%  Similarity=0.267  Sum_probs=58.5

Q ss_pred             ccEEEEeC--CCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeec-CeeEEE
Q 024507            4 TRTVQVKN--VSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIV-DQIVSI   74 (266)
Q Consensus         4 ~~TV~V~N--Ls~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~-g~~I~V   74 (266)
                      .++++|.|  ||+.+|+++|+++|+.||.|++|.+..+   +++|||+|.+.++|..|+ .|||..|. +..+.|
T Consensus        18 t~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~---k~~aFV~f~~~e~A~~A~~~lng~~i~~~~~~~i   89 (101)
T d2cq2a1          18 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN---KPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKI   89 (101)
T ss_dssp             CSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT---CSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEE
T ss_pred             CceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccC---ccEEEEEECCHHHHHHHHHHhCCCCCCCCCCcEE
Confidence            46888865  9999999999999999999999999865   569999999999999999 69999884 333443

>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=99.24  E-value=8.2e-13  Score=102.09  Aligned_cols=72  Identities=17%  Similarity=0.195  Sum_probs=63.7

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecC--CCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeC
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREY--GQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPA   77 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~--~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a   77 (266)
                      .++|.|+...++|++|+++|+.||+|++|.|.++.  ..+|+|||+|+++++|..|+ .|||..++||+|.|.-.
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            35677778889999999999999999999998765  34699999999999999999 69999999999999753

>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=99.22  E-value=2.7e-11  Score=92.39  Aligned_cols=76  Identities=17%  Similarity=0.238  Sum_probs=65.1

Q ss_pred             CCccEEEEeCC--CCcc---------cHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecC
Q 024507            2 QQTRTVQVKNV--SDLA---------HEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVD   69 (266)
Q Consensus         2 ~~~~TV~V~NL--s~~~---------Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g   69 (266)
                      .-.++|+|.||  +...         .+++|++.|+.+|+|..|.+..+ ...|++||+|+++++|..|+ .|||..++|
T Consensus         6 ~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~-~~~G~~fV~f~~~e~A~~A~~~lng~~~~g   84 (99)
T d2dita1           6 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR-HPDGVASVSFRDPEEADYCIQTLDGRWFGG   84 (99)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT-CTTCEEEEECSCHHHHHHHHHHSTTCEETT
T ss_pred             CCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCC-CCccEEEEEECCHHHHHHHHHHhCCcEECC
Confidence            34689999999  4432         34789999999999999998765 35789999999999999999 699999999


Q ss_pred             eeEEEEeCC
Q 024507           70 QIVSITPAE   78 (266)
Q Consensus        70 ~~I~V~~a~   78 (266)
                      |.|.|..+.
T Consensus        85 r~i~v~~~~   93 (99)
T d2dita1          85 RQITAQAWD   93 (99)
T ss_dssp             EECEEEECC
T ss_pred             EEEEEEEeC
Confidence            999999864

>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=99.03  E-value=1.7e-10  Score=88.36  Aligned_cols=74  Identities=20%  Similarity=0.223  Sum_probs=63.3

Q ss_pred             ccEEEEeCC--C--------CcccHHHHHHHcccCCceeEEEEEecCC-----CCcEEEEEecChHHHHHHH-HhcCCee
Q 024507            4 TRTVQVKNV--S--------DLAHEREIHEFFSFSGDIERIEILREYG-----QSKTAFVTFKDAKALEIAL-LLSGATI   67 (266)
Q Consensus         4 ~~TV~V~NL--s--------~~~Te~dL~efFs~cG~I~~I~l~~d~~-----~~~~AyVtF~~~~aa~tAL-lLng~~l   67 (266)
                      ++.|.+.||  +        .....+||++.|+.||.|++|.|.++..     ..|++||+|+++++|..|+ .|||..+
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            578999999  2        2345678999999999999999987542     3489999999999999999 5999999


Q ss_pred             cCeeEEEEeC
Q 024507           68 VDQIVSITPA   77 (266)
Q Consensus        68 ~g~~I~V~~a   77 (266)
                      +||.|.|..+
T Consensus        84 ~gR~v~v~f~   93 (104)
T d1o0pa_          84 ANRVVVTKYC   93 (104)
T ss_dssp             SSSCCEEEEE
T ss_pred             CCeEEEEEEc
Confidence            9999999875

>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=97.59  E-value=6.9e-05  Score=56.40  Aligned_cols=67  Identities=25%  Similarity=0.269  Sum_probs=58.0

Q ss_pred             cEEEEeCCCCcccH---------HHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHhcCCeecCeeEEEE
Q 024507            5 RTVQVKNVSDLAHE---------REIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLLSGATIVDQIVSIT   75 (266)
Q Consensus         5 ~TV~V~NLs~~~Te---------~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlLng~~l~g~~I~V~   75 (266)
                      -||.|.=.++...+         .+|.+-|+.||+|.-||+..+     ...|||.+-++|-+||.|||.++.|+.|.|+
T Consensus        16 gTIvV~i~~~s~e~~~~FDe~l~~~Llq~l~~~GeViLvRFv~d-----~mwVTF~dG~SAL~al~l~g~~v~G~~l~It   90 (95)
T d1ufwa_          16 ATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQG-----QMLVTFADSHSALSVLDVDGMKVKGRAVKIS   90 (95)
T ss_dssp             CEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETT-----EEEEECSCSHHHHHHHHGGGSEETTEEEEEE
T ss_pred             cEEEEEeccCCccccccCCHHHHHHHHHHHhhCCeEEEEEEeCC-----eEEEEECCcHHHHHHhccCCeEEcceEEEEe
Confidence            47888666655544         468888999999999999855     7999999999999999999999999999998


Q ss_pred             e
Q 024507           76 P   76 (266)
Q Consensus        76 ~   76 (266)
                      .
T Consensus        91 ~   91 (95)
T d1ufwa_          91 G   91 (95)
T ss_dssp             C
T ss_pred             c
Confidence            6

>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=96.75  E-value=0.0032  Score=46.78  Aligned_cols=66  Identities=12%  Similarity=0.257  Sum_probs=56.3

Q ss_pred             cEEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCC-----CCcEEEEEecChHHHHHHH-HhcCCeecCe
Q 024507            5 RTVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYG-----QSKTAFVTFKDAKALEIAL-LLSGATIVDQ   70 (266)
Q Consensus         5 ~TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~-----~~~~AyVtF~~~~aa~tAL-lLng~~l~g~   70 (266)
                      +.|.|.+|||..||+++.+-++.+|++........+.     ....|||.|.+++.+..-. ..+|..+.|.
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D~   73 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDN   73 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECT
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEcC
Confidence            5789999999999999999999999999988876542     2368999999999988866 6999998654

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.09  E-value=0.0071  Score=43.08  Aligned_cols=60  Identities=17%  Similarity=0.185  Sum_probs=52.2

Q ss_pred             HHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHH-HhcCCeecCeeEEEEeCC
Q 024507           19 REIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIAL-LLSGATIVDQIVSITPAE   78 (266)
Q Consensus        19 ~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tAL-lLng~~l~g~~I~V~~a~   78 (266)
                      +-|.+.|+.||+|.++.+..-.+..-.|-|.-.+.++|..|+ .|.-..|+++.|.|+...
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            345567899999999999877666778999999999999999 699999999999998754

>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=88.12  E-value=0.49  Score=35.13  Aligned_cols=52  Identities=21%  Similarity=0.346  Sum_probs=43.9

Q ss_pred             EEEEeCCCCcccHHHHHHHcccCCceeEEEEEecCCCCcEEEEEecChHHHHHHHHh
Q 024507            6 TVQVKNVSDLAHEREIHEFFSFSGDIERIEILREYGQSKTAFVTFKDAKALEIALLL   62 (266)
Q Consensus         6 TV~V~NLs~~~Te~dL~efFs~cG~I~~I~l~~d~~~~~~AyVtF~~~~aa~tALlL   62 (266)
                      -||.-..|......||.++||.||.| +|..+.|    ..|||...+.+.++.++..
T Consensus        17 HVf~~tFP~~Wk~~dI~~lFSpfG~V-~VswIdd----TSa~V~L~~~e~~~~v~~~   68 (100)
T d1whva_          17 HVLHVTFPKEWKTSDLYQLFSAFGNI-QISWIDD----TSAFVSLSQPEQVQIAVNT   68 (100)
T ss_dssp             SEEEEECCTTCCHHHHHHHHTTTCSC-CCEEEET----TEEEEECSCHHHHHHHHHH
T ss_pred             eeEEEeCCcccchhHHHHHhcCCCce-EEEEecC----ceEEEEecCHHHHHHHHHH
Confidence            58999999999999999999999985 4444443    2899999999999998853