Citrus Sinensis ID: 044301

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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----
Protein Sequence
MEEGKQEELNEKNSKHSKSKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQESQTHPELPGSEQVTKVIRHFPQKQPVTDNAAPSKSRLSKDILAGVFGGP
Secondary Structure (PSIPRED)
cccccccccccccccccHHHHHHHHHHHHHHcccccEEEEccccccccHHHHHHHHHHHccccEEEEccccccHHHHHHHHHcccccccccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccccccccccHHHHHcccccHHHHHHHHHHcccccEEEEEcccccccHHHHHHHHHHcccccEEEEccccHHHHHHHHHHHHHHccccccccccccHHHHHHHHHcccccccccccccEEEcccccccccccccccccccccHHHHHcccccc
Coil and Loop (DISEMBL)
meegkqeelneknskhsKSKKKQRLLEEAAKADQRgicylsripphmdpvKLRQILSQYGEIqriylapedpstrvLRKRenrkrdggfqdqgfsegyKQKVQQesqthpelpgseQVTKVIRhfpqkqpvtdnaapsksrlskdilagvfggp
Flexible Loop (DISEMBL)
meegkqeelneknskhskskkkQRLLEEAAKADQRGICYlsripphmdpVKLRQILSQYGEIQRiylapedpstrvlrkrenrkrdggfqdqgfseGYKQKVQQESQTHPELPGSEQVTKVIRHFPqkqpvtdnaapsksrlskdilagvfggp
Low Complexity Region (SEG)
MEEGKQEELNEknskhskskkkQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQESQTHPELPGSEQVTKVIRHFPQKQPVTDNAAPSKSRLSKDILAGVFGGP
Disordered region (IsUnstruct)
**********************************RGICYLSRIPPHMDPVKLRQILSQYGEIQRIY****************************************************************************************
Disordered Region (DISOPRED)
************************************ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA*************************FSEGYKQKVQQESQTHPEL********************************DILAGVFGG*
Disordered Region (DISEMBL)
*******************************ADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEG****************GSEQVTKVIRHFPQKQ***********RLSKDILAGVFGGP
Disordered Region (DISPRO)
******************SKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKREN********DQGFSEGYKQKVQQESQTHPELPGSEQVTKVIR*FPQKQ**T********RLSKDIL*GVFGGP
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEEGKQEELNEKNSKHSKSKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQESQTHPELPGSEQVTKVIRHFPQKQPVTDNAAPSKSRLSKDILAGVFGGP
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	154	2.2.26 [Sep-21-2011]
O74362	334	Pre-rRNA-processing prote	yes	no	0.584	0.269	0.479	2e-15
Q59YL9	320	Pre-rRNA-processing prote	N/A	no	0.487	0.234	0.45	5e-14
Q2GZQ4	332	Pre-rRNA-processing prote	N/A	no	0.538	0.25	0.420	3e-13
Q4HZ47	321	Pre-rRNA-processing prote	yes	no	0.5	0.239	0.414	9e-13
Q7S8W7	340	Pre-rRNA-processing prote	N/A	no	0.512	0.232	0.430	1e-12
Q6BSS5	303	Pre-rRNA-processing prote	yes	no	0.461	0.234	0.407	2e-12
A3LVD5	347	Pre-rRNA-processing prote	yes	no	0.642	0.285	0.346	5e-12
Q6CFT1	324	Pre-rRNA-processing prote	yes	no	0.512	0.243	0.397	3e-11
Q6FWS2	309	Pre-rRNA-processing prote	yes	no	0.376	0.187	0.476	1e-10
Q6CSP8	293	Pre-rRNA-processing prote	yes	no	0.376	0.197	0.428	1e-09

>sp|O74362|ESF2_SCHPO Pre-rRNA-processing protein esf2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=esf2 PE=1 SV=1

 Score = 81.3 bits (199), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 47/98 (47%), Positives = 65/98 (66%), Gaps = 8/98 (8%)

Query: 4   GKQEELNEKNSKHSKSKKKQRL--LEEAAKADQR-GICYLSRIPPHMDPVKLRQILSQYG 60
           G + EL+E+ +K++ S KK  L  +E+  KA +R G+ YLSRIPP+M P KLRQILSQYG
Sbjct: 87  GSENELDEETTKNANSIKKISLEEVEKQRKAIKRSGVIYLSRIPPYMAPNKLRQILSQYG 146

Query: 61  EIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGY 98
           +I R+YL PE  +     KR  R R+GG +   + EG+
Sbjct: 147 KIGRVYLTPESSA-----KRAQRLRNGGNKRVMYEEGW 179

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q59YL9|ESF2_CANAL Pre-rRNA-processing protein ESF2 OS=Candida albicans (strain SC5314 / ATCC MYA-2876) GN=ESF2 PE=3 SV=2

 Score = 76.6 bits (187), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 36/80 (45%), Positives = 54/80 (67%), Gaps = 5/80 (6%)

Query: 25  LLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRK 84
           L +E  +  + G+CYLSR+PP+M P KLR +LS++GEI R++L PEDPS  V  KR    
Sbjct: 113 LAKEQKRIKRTGVCYLSRVPPYMKPAKLRSVLSRFGEIDRLFLKPEDPS--VYHKRV--- 167

Query: 85  RDGGFQDQGFSEGYKQKVQQ 104
           + GG + + F+EG+ + V +
Sbjct: 168 KYGGNKKKNFTEGWIEFVNK 187

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Candida albicans (strain SC5314 / ATCC MYA-2876) (taxid: 237561)

>sp|Q2GZQ4|ESF2_CHAGB Pre-rRNA-processing protein ESF2 OS=Chaetomium globosum (strain ATCC 6205 / CBS 148.51 / DSM 1962 / NBRC 6347 / NRRL 1970) GN=ESF2 PE=3 SV=2

 Score = 74.3 bits (181), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 37/88 (42%), Positives = 53/88 (60%), Gaps = 5/88 (5%)

Query: 17  SKSKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRV 76
           SK   K+ L+   A   + G+ YLSRIPP M P KLR +L  YG+I RI+L PEDP+   
Sbjct: 102 SKPLAKKNLVASEAAIKKSGVVYLSRIPPFMKPAKLRSLLEPYGKINRIFLTPEDPTEHT 161

Query: 77  LRKRENRKRDGGFQDQGFSEGYKQKVQQ 104
                 R R+GG + + F+EG+ + V++
Sbjct: 162 -----RRVRNGGNKKRSFTEGWVEFVKK 184

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Chaetomium globosum (strain ATCC 6205 / CBS 148.51 / DSM 1962 / NBRC 6347 / NRRL 1970) (taxid: 306901)

>sp|Q4HZ47|ESF2_GIBZE Pre-rRNA-processing protein ESF2 OS=Gibberella zeae (strain PH-1 / ATCC MYA-4620 / FGSC 9075 / NRRL 31084) GN=ESF2 PE=3 SV=1

 Score = 72.4 bits (176), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 34/82 (41%), Positives = 50/82 (60%), Gaps = 5/82 (6%)

Query: 17  SKSKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRV 76
           +++  K+ L+   A   + G+ YLSRIPP M P KLR +L  YG I RI+LAPEDP++  
Sbjct: 99  TRTLTKKNLVASEAAIKKSGVVYLSRIPPFMKPAKLRSLLEPYGTINRIFLAPEDPASHA 158

Query: 77  LRKRENRKRDGGFQDQGFSEGY 98
            R R      GG + + ++EG+
Sbjct: 159 RRVRA-----GGNKKRSYTEGW 175

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Gibberella zeae (strain PH-1 / ATCC MYA-4620 / FGSC 9075 / NRRL 31084) (taxid: 229533)

>sp|Q7S8W7|ESF2_NEUCR Pre-rRNA-processing protein esf-2 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=esf-2 PE=3 SV=1

 Score = 72.4 bits (176), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 37/86 (43%), Positives = 54/86 (62%), Gaps = 7/86 (8%)

Query: 19  SKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLR 78
           +KK   + EEA K  + G+ Y+SR+PP M P KLR +L  YG++ RI+LAPEDP      
Sbjct: 109 TKKNLIVTEEAIK--KSGVVYISRVPPFMTPAKLRSLLEPYGKLNRIFLAPEDPVA---- 162

Query: 79  KRENRKRDGGFQDQGFSEGYKQKVQQ 104
            R  R R GG + + F+EG+ + V++
Sbjct: 163 -RRKRIRSGGNKKKMFTEGWIEFVKK 187

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

>sp|Q6BSS5|ESF2_DEBHA Pre-rRNA-processing protein ESF2 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=ESF2 PE=3 SV=2

 Score = 71.6 bits (174), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 31/76 (40%), Positives = 50/76 (65%), Gaps = 5/76 (6%)

Query: 23  QRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKREN 82
           ++L +E  K  + G+CYLS+IPP+M P KLR +LS++G+I R++L PED ST        
Sbjct: 83  EQLAKEQKKIKKTGVCYLSKIPPYMKPAKLRSVLSRFGKIDRLFLKPEDNSTYT-----K 137

Query: 83  RKRDGGFQDQGFSEGY 98
           R + GG + + ++ G+
Sbjct: 138 RVKYGGNKKKNYTAGW 153

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (taxid: 284592)

>sp|A3LVD5|ESF2_PICST Pre-rRNA-processing protein ESF2 OS=Scheffersomyces stipitis (strain ATCC 58785 / CBS 6054 / NBRC 10063 / NRRL Y-11545) GN=ESF2 PE=3 SV=2

 Score = 70.1 bits (170), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 36/104 (34%), Positives = 61/104 (58%), Gaps = 5/104 (4%)

Query: 1   MEEGKQEELNEKNSKHSKSKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYG 60
           +E G  +  +E+ +   K    ++L +E  +  + G+CYLSRIPP+M P  LR ILS++G
Sbjct: 111 IEVGDVDSTSERKNGKIKKLTSRQLQKEQKRIKRTGVCYLSRIPPYMKPATLRSILSRFG 170

Query: 61  EIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQ 104
           +I R++L PED +         R + GG + + F+EG+ + V +
Sbjct: 171 KIDRLFLKPEDSAI-----YHKRVKYGGNKKKNFTEGWVEFVNK 209

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Scheffersomyces stipitis (strain ATCC 58785 / CBS 6054 / NBRC 10063 / NRRL Y-11545) (taxid: 322104)

>sp|Q6CFT1|ESF2_YARLI Pre-rRNA-processing protein ESF2 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=ESF2 PE=3 SV=1

 Score = 67.4 bits (163), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 35/88 (39%), Positives = 52/88 (59%), Gaps = 9/88 (10%)

Query: 17  SKSKKKQRLLEEAAKADQR----GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDP 72
           +K+K K    EE  K +++    G+ Y SRIPP MDP KLR +L ++G + RIYL PEDP
Sbjct: 103 TKAKTKPMTKEEIEKHNKKIAKTGVVYFSRIPPLMDPGKLRMLLQRFGIVDRIYLVPEDP 162

Query: 73  STRVLRKRENRKRDGGFQDQGFSEGYKQ 100
             + +R R      GG +   ++EG+ +
Sbjct: 163 KAQAVRIRH-----GGNRALAYTEGWAE 185

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

>sp|Q6FWS2|ESF2_CANGA Pre-rRNA-processing protein ESF2 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=ESF2 PE=3 SV=1

 Score = 65.5 bits (158), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 30/63 (47%), Positives = 42/63 (66%), Gaps = 5/63 (7%)

Query: 36  GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFS 95
           G+ YLSRIPP+M P K+RQILS++GEI R++L  ED +     K + R R GG +   + 
Sbjct: 114 GVVYLSRIPPYMKPAKMRQILSRFGEIDRLFLKREDEA-----KHKQRTRGGGNKKIMYE 168

Query: 96  EGY 98
           EG+
Sbjct: 169 EGW 171

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) (taxid: 284593)

>sp|Q6CSP8|ESF2_KLULA Pre-rRNA-processing protein ESF2 OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=ESF2 PE=3 SV=1

 Score = 62.4 bits (150), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/63 (42%), Positives = 41/63 (65%), Gaps = 5/63 (7%)

Query: 36  GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFS 95
           G+ YLSR+PP+M P KLRQIL+++GE+ R++L  E+       K + R + GG +   F 
Sbjct: 91  GVVYLSRVPPYMKPAKLRQILTRFGEVDRLFLKREEE-----HKHQQRVKSGGNKKTMFE 145

Query: 96  EGY 98
           EG+
Sbjct: 146 EGW 148

Involved in the small subunit (SSU) processome assembly and function, and in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.

Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (taxid: 284590)

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	154
449450052	380	PREDICTED: pre-rRNA-processing protein E	0.532	0.215	0.662	3e-25
449530761	326	PREDICTED: pre-rRNA-processing protein e	0.532	0.251	0.662	3e-25
225456507	257	PREDICTED: pre-rRNA-processing protein E	0.428	0.256	0.746	1e-23
297734519	344	unnamed protein product [Vitis vinifera]	0.428	0.191	0.746	2e-23
147860851	486	hypothetical protein VITISV_022556 [Viti	0.590	0.187	0.659	2e-23
255570173	406	Activator of basal transcription, putati	0.454	0.172	0.676	5e-20
30694465	257	RNA recognition motif-containing protein	0.422	0.252	0.657	8e-20
297820414	256	hypothetical protein ARALYDRAFT_486092 [	0.422	0.253	0.642	2e-19
7594529	266	putative protein [Arabidopsis thaliana]	0.454	0.263	0.621	7e-18
357496967	314	Pre-rRNA-processing protein esf2 [Medica	0.396	0.194	0.606	2e-16

>gi|449450052|ref|XP_004142778.1| PREDICTED: pre-rRNA-processing protein ESF2-like [Cucumis sativus]

 Score =  120 bits (300), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 59/89 (66%), Positives = 72/89 (80%), Gaps = 7/89 (7%)

Query: 10  NEKNSKHSKSKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP 69
           N KN +  K K+K++LL+EAA AD RGICYLSR+PPHMDP+KLRQILSQ+GEIQRIYLAP
Sbjct: 148 NGKNQR--KIKRKKQLLKEAANADMRGICYLSRVPPHMDPLKLRQILSQHGEIQRIYLAP 205

Query: 70  EDPSTRVLRKRENRKRDGGFQDQGFSEGY 98
           ED +++V      RKR GGF+ Q FSEG+
Sbjct: 206 EDAASQV-----QRKRAGGFRGQFFSEGW 229

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449530761|ref|XP_004172361.1| PREDICTED: pre-rRNA-processing protein esf2-like, partial [Cucumis sativus]

 Score =  119 bits (299), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 59/89 (66%), Positives = 72/89 (80%), Gaps = 7/89 (7%)

Query: 10  NEKNSKHSKSKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP 69
           N KN +  K K+K++LL+EAA AD RGICYLSR+PPHMDP+KLRQILSQ+GEIQRIYLAP
Sbjct: 94  NGKNQR--KIKRKKQLLKEAANADMRGICYLSRVPPHMDPLKLRQILSQHGEIQRIYLAP 151

Query: 70  EDPSTRVLRKRENRKRDGGFQDQGFSEGY 98
           ED +++V      RKR GGF+ Q FSEG+
Sbjct: 152 EDAASQV-----QRKRAGGFRGQFFSEGW 175

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225456507|ref|XP_002284683.1| PREDICTED: pre-rRNA-processing protein ESF2 [Vitis vinifera]

 Score =  114 bits (285), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 53/71 (74%), Positives = 61/71 (85%), Gaps = 5/71 (7%)

Query: 28  EAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDG 87
           EA+KAD+RG+CYLSRIPPHMD VKLR ILSQYGEIQRIYLAPEDP+T+V     +RKR G
Sbjct: 40  EASKADKRGVCYLSRIPPHMDHVKLRHILSQYGEIQRIYLAPEDPATQV-----HRKRAG 94

Query: 88  GFQDQGFSEGY 98
           GF+ Q FSEG+
Sbjct: 95  GFRGQVFSEGW 105

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297734519|emb|CBI15766.3| unnamed protein product [Vitis vinifera]

 Score =  114 bits (284), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 53/71 (74%), Positives = 61/71 (85%), Gaps = 5/71 (7%)

Query: 28  EAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDG 87
           EA+KAD+RG+CYLSRIPPHMD VKLR ILSQYGEIQRIYLAPEDP+T+V     +RKR G
Sbjct: 127 EASKADKRGVCYLSRIPPHMDHVKLRHILSQYGEIQRIYLAPEDPATQV-----HRKRAG 181

Query: 88  GFQDQGFSEGY 98
           GF+ Q FSEG+
Sbjct: 182 GFRGQVFSEGW 192

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860851|emb|CAN83161.1| hypothetical protein VITISV_022556 [Vitis vinifera]

 Score =  114 bits (284), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 64/97 (65%), Positives = 79/97 (81%), Gaps = 6/97 (6%)

Query: 2   EEGKQEELNEKNSKHSKSKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGE 61
           EEG+ E  N++  +  K+K K+RLL+EA+KAD+RG+CYLSRIPPHMD VKLR ILSQYGE
Sbjct: 15  EEGESEG-NDEKGRIRKNKLKKRLLKEASKADKRGVCYLSRIPPHMDHVKLRHILSQYGE 73

Query: 62  IQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGY 98
           IQRIYLAPEDP+T+V     +RKR GGF+ Q FSEG+
Sbjct: 74  IQRIYLAPEDPATQV-----HRKRAGGFRGQVFSEGW 105

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570173|ref|XP_002526047.1| Activator of basal transcription, putative [Ricinus communis] gi|223534628|gb|EEF36324.1| Activator of basal transcription, putative [Ricinus communis]

 Score =  102 bits (254), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 48/71 (67%), Positives = 56/71 (78%), Gaps = 1/71 (1%)

Query: 28  EAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDG 87
           EAA+AD+RG+CYLSRIPPHMD VKLR IL +YGEIQRIYLAPE    RV  + + RK D 
Sbjct: 190 EAAQADRRGVCYLSRIPPHMDHVKLRHILCRYGEIQRIYLAPEVNKHRVQYRVQRRKAD- 248

Query: 88  GFQDQGFSEGY 98
           G +D GFSEG+
Sbjct: 249 GLEDLGFSEGW 259

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30694465|ref|NP_191210.2| RNA recognition motif-containing protein [Arabidopsis thaliana] gi|79315331|ref|NP_001030873.1| RNA recognition motif-containing protein [Arabidopsis thaliana] gi|38564304|gb|AAR23731.1| At3g56510 [Arabidopsis thaliana] gi|45592922|gb|AAS68115.1| At3g56510 [Arabidopsis thaliana] gi|110736352|dbj|BAF00145.1| hypothetical protein [Arabidopsis thaliana] gi|332646008|gb|AEE79529.1| RNA recognition motif-containing protein [Arabidopsis thaliana] gi|332646009|gb|AEE79530.1| RNA recognition motif-containing protein [Arabidopsis thaliana]

 Score =  101 bits (252), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 46/70 (65%), Positives = 55/70 (78%), Gaps = 5/70 (7%)

Query: 29  AAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGG 88
           A+KAD RG+CYLSRIPPHMD V+LR IL+QYGE+ RIYLAPED   +V     +RKR GG
Sbjct: 43  ASKADNRGVCYLSRIPPHMDHVRLRHILAQYGELGRIYLAPEDSEAQV-----HRKRAGG 97

Query: 89  FQDQGFSEGY 98
           F+ Q FSEG+
Sbjct: 98  FRGQRFSEGW 107

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297820414|ref|XP_002878090.1| hypothetical protein ARALYDRAFT_486092 [Arabidopsis lyrata subsp. lyrata] gi|297323928|gb|EFH54349.1| hypothetical protein ARALYDRAFT_486092 [Arabidopsis lyrata subsp. lyrata]

 Score =  100 bits (249), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 45/70 (64%), Positives = 55/70 (78%), Gaps = 5/70 (7%)

Query: 29  AAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGG 88
           A+KAD RG+CYLSRIPPHMD V+LR IL+Q+GE+ RIYLAPED   +V     +RKR GG
Sbjct: 42  ASKADNRGVCYLSRIPPHMDHVRLRHILAQFGELGRIYLAPEDSEAQV-----HRKRAGG 96

Query: 89  FQDQGFSEGY 98
           F+ Q FSEG+
Sbjct: 97  FRGQRFSEGW 106

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|7594529|emb|CAB88054.1| putative protein [Arabidopsis thaliana]

 Score = 95.5 bits (236), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 46/74 (62%), Positives = 54/74 (72%), Gaps = 4/74 (5%)

Query: 29  AAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE-DPSTRVLRKRE---NRK 84
           A+KAD RG+CYLSRIPPHMD V+LR IL+QYGE+ RIYLAPE D         E   +RK
Sbjct: 43  ASKADNRGVCYLSRIPPHMDHVRLRHILAQYGELGRIYLAPEADTFVYCYSDSEAQVHRK 102

Query: 85  RDGGFQDQGFSEGY 98
           R GGF+ Q FSEG+
Sbjct: 103 RAGGFRGQRFSEGW 116

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357496967|ref|XP_003618772.1| Pre-rRNA-processing protein esf2 [Medicago truncatula] gi|355493787|gb|AES74990.1| Pre-rRNA-processing protein esf2 [Medicago truncatula]

 Score = 90.5 bits (223), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 40/66 (60%), Positives = 50/66 (75%), Gaps = 5/66 (7%)

Query: 33  DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQ 92
           + RG+CYLSRIPPHMD VKLRQ+LSQ+G+IQRIYLAP+D + RV       KR    Q+Q
Sbjct: 58  NMRGVCYLSRIPPHMDHVKLRQLLSQFGDIQRIYLAPQDSNARV-----QSKRARASQNQ 112

Query: 93  GFSEGY 98
            +SEG+
Sbjct: 113 AYSEGW 118

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	154
TAIR|locus:2102594	257	AT3G56510 [Arabidopsis thalian	0.727	0.435	0.449	1.5e-21
CGD|CAL0002361	320	orf19.3161 [Candida albicans (	0.5	0.240	0.439	1.7e-15
POMBASE|SPBC28E12.05	334	esf2 "U3 snoRNP-associated pro	0.714	0.329	0.386	7.9e-13
UNIPROTKB|F1RQ93	272	LOC100156526 "Uncharacterized	0.422	0.238	0.369	9.6e-10
UNIPROTKB|G4N0U5	330	MGG_05815 "Pre-rRNA-processing	0.376	0.175	0.507	9.9e-10
UNIPROTKB|Q9ULW3	272	ABT1 "Activator of basal trans	0.597	0.338	0.3	1.1e-09
UNIPROTKB|J9P2J3	308	ABT1 "Uncharacterized protein"	0.610	0.305	0.333	1.7e-09
SGD|S000005337	316	ESF2 "Essential nucleolar prot	0.5	0.243	0.345	6.7e-09
FB|FBgn0052708	239	CG32708 [Drosophila melanogast	0.454	0.292	0.430	1.4e-08
UNIPROTKB|Q148M8	275	ABT1 "Activator of basal trans	0.480	0.269	0.320	1.8e-08

TAIR|locus:2102594 AT3G56510 [Arabidopsis thaliana (taxid:3702)]

 Score = 252 (93.8 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 53/118 (44%), Positives = 76/118 (64%)

Query:     2 EEGKQEELNEXXXXXXXXXXXQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGE 61
             E+  +E +             ++LL+EA+KAD RG+CYLSRIPPHMD V+LR IL+QYGE
Sbjct:    16 EKESKETMKSQKADRKKKKLKEKLLKEASKADNRGVCYLSRIPPHMDHVRLRHILAQYGE 75

Query:    62 IQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQE-SQTHPELPGSEQV 118
             + RIYLAPED   +V     +RKR GGF+ Q FSEG+ +  ++  ++   ++   EQ+
Sbjct:    76 LGRIYLAPEDSEAQV-----HRKRAGGFRGQRFSEGWVEFAKKSVAKRVADMLNGEQI 128

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0017025 "TBP-class protein binding" evidence=ISS

CGD|CAL0002361 orf19.3161 [Candida albicans (taxid:5476)]

 Score = 179 (68.1 bits), Expect = 1.7e-15, Sum P(2) = 1.7e-15
 Identities = 36/82 (43%), Positives = 55/82 (67%)

Query:    23 QRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKREN 82
             + L +E  +  + G+CYLSR+PP+M P KLR +LS++GEI R++L PEDPS  V  KR  
Sbjct:   111 KELAKEQKRIKRTGVCYLSRVPPYMKPAKLRSVLSRFGEIDRLFLKPEDPS--VYHKRV- 167

Query:    83 RKRDGGFQDQGFSEGYKQKVQQ 104
               + GG + + F+EG+ + V +
Sbjct:   168 --KYGGNKKKNFTEGWIEFVNK 187

GO:0030686 "90S preribosome" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0000472 "endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IEA

GO:0000447 "endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IEA

GO:0034462 "small-subunit processome assembly" evidence=IEA

GO:0000480 "endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0001671 "ATPase activator activity" evidence=IEA

POMBASE|SPBC28E12.05 esf2 "U3 snoRNP-associated protein Esf2 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 174 (66.3 bits), Expect = 7.9e-13, P = 7.9e-13
 Identities = 46/119 (38%), Positives = 69/119 (57%)

Query:     4 GKQEELNEXXXXXXXXXXXQRL--LEEAAKADQR-GICYLSRIPPHMDPVKLRQILSQYG 60
             G + EL+E             L  +E+  KA +R G+ YLSRIPP+M P KLRQILSQYG
Sbjct:    87 GSENELDEETTKNANSIKKISLEEVEKQRKAIKRSGVIYLSRIPPYMAPNKLRQILSQYG 146

Query:    61 EIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQ-KVQQESQTHPELPGSEQV 118
             +I R+YL PE  +     KR  R R+GG +   + EG+ + + ++ +++  EL  + Q+
Sbjct:   147 KIGRVYLTPESSA-----KRAQRLRNGGNKRVMYEEGWIEFESKRVAKSVAELLNTNQI 200

GO:0003723 "RNA binding" evidence=ISM

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=ISO;IDA

GO:0006364 "rRNA processing" evidence=ISO

UNIPROTKB|F1RQ93 LOC100156526 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 122 (48.0 bits), Expect = 9.6e-10, Sum P(2) = 9.6e-10
 Identities = 24/65 (36%), Positives = 35/65 (53%)

Query:    36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFS 95
             GI YL  IPP   P+ +R +LS YGE+ R++  PED   R  +K       GG +   +S
Sbjct:    43 GIVYLGHIPPRFRPLHVRNLLSAYGEVGRVFFQPEDGFVRRKKKAAAASTTGGKKRSKYS 102

Query:    96 EGYKQ 100
             + Y +
Sbjct:   103 KDYTE 107

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|G4N0U5 MGG_05815 "Pre-rRNA-processing protein ESF2" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 146 (56.5 bits), Expect = 9.9e-10, P = 9.9e-10
 Identities = 32/63 (50%), Positives = 42/63 (66%)

Query:    36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFS 95
             G+ YLSRIPP M P KLR +L  YG+I RI+L+PEDP  R   KR  R + GG + + F 
Sbjct:   128 GVVYLSRIPPFMKPSKLRSLLVPYGKINRIFLSPEDPEAR---KR--RLKAGGNKKRCFV 182

Query:    96 EGY 98
             +G+
Sbjct:   183 DGW 185

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q9ULW3 ABT1 "Activator of basal transcription 1" [Homo sapiens (taxid:9606)]

 Score = 115 (45.5 bits), Expect = 1.1e-09, Sum P(2) = 1.1e-09
 Identities = 30/100 (30%), Positives = 49/100 (49%)

Query:     5 KQEELNEXXXXXXXXXXXQRLLEEAAKADQR----GICYLSRIPPHMDPVKLRQILSQYG 60
             +QE L E           Q   EEAA   ++    GI YL  IPP   P+ +R +LS YG
Sbjct:    12 EQEPL-EGTEQTLDAEEEQEESEEAACGSKKRVVPGIVYLGHIPPRFRPLHVRNLLSAYG 70

Query:    61 EIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQ 100
             E+ R++   ED   R +R+++      G + + +++ Y +
Sbjct:    71 EVGRVFFQAED---RFVRRKKKAAAAAGGKKRSYTKDYTE 107

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IEA

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

GO:0021522 "spinal cord motor neuron differentiation" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0003713 "transcription coactivator activity" evidence=TAS

GO:0005634 "nucleus" evidence=TAS

UNIPROTKB|J9P2J3 ABT1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 122 (48.0 bits), Expect = 1.7e-09, Sum P(2) = 1.7e-09
 Identities = 33/99 (33%), Positives = 48/99 (48%)

Query:     6 QEELNEXXXXXXXXXXXQRLLEEAA-KADQR---GICYLSRIPPHMDPVKLRQILSQYGE 61
             QE L E           Q   EEAA  A +R   GI YL  +PP   P+ +R +LS +GE
Sbjct:    46 QEPL-EGTDQKAEAEEEQEESEEAACGAKKRVVPGIVYLGHLPPRFRPLHVRNLLSAFGE 104

Query:    62 IQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQ 100
             + R++  PED   R  +K  +    GG +   +S+ Y +
Sbjct:   105 VGRVFFQPEDGFVRRKKKAVSASATGGKKRSKYSKDYTE 143

GO:0000166 "nucleotide binding" evidence=IEA

SGD|S000005337 ESF2 "Essential nucleolar protein involved in pre-18S rRNA processing" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 138 (53.6 bits), Expect = 6.7e-09, P = 6.7e-09
 Identities = 29/84 (34%), Positives = 51/84 (60%)

Query:    23 QRLLEEAAKADQR--GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKR 80
             Q +  +AAK  +   G+ Y S IPP+M P K+RQIL+++GE+ R++L  ED      +K 
Sbjct:    99 QLVKSKAAKKSKHKTGVVYFSSIPPYMKPAKMRQILTRFGEVDRLFLKKEDD-----QKY 153

Query:    81 ENRKRDGGFQDQGFSEGYKQKVQQ 104
             + R + GG +   + EG+ + +++
Sbjct:   154 KQRVKGGGNKKNKYEEGWAEFIRK 177

GO:0000447 "endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IMP

GO:0005730 "nucleolus" evidence=IEA;IDA

GO:0030686 "90S preribosome" evidence=IDA

GO:0003723 "RNA binding" evidence=IEA;IDA

GO:0001671 "ATPase activator activity" evidence=IDA

GO:0000472 "endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IMP

GO:0000480 "endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IMP

GO:0034462 "small-subunit processome assembly" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

FB|FBgn0052708 CG32708 [Drosophila melanogaster (taxid:7227)]

 Score = 132 (51.5 bits), Expect = 1.4e-08, P = 1.4e-08
 Identities = 31/72 (43%), Positives = 44/72 (61%)

Query:    30 AKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGF 89
             AK  + GI Y+S IP HM+  +LR+IL +YG I R+YL PE  S+   +K + RKR    
Sbjct:    68 AKKRKMGIIYISNIPKHMNVTRLREILGEYGAIGRVYLQPEKLSSAKAKKNK-RKRYNIH 126

Query:    90 QDQGFSEGYKQK 101
               +G+ E +K K
Sbjct:   127 FTEGWVE-FKSK 137

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0022008 "neurogenesis" evidence=IMP

UNIPROTKB|Q148M8 ABT1 "Activator of basal transcription 1" [Bos taurus (taxid:9913)]

 Score = 111 (44.1 bits), Expect = 1.8e-08, Sum P(2) = 1.8e-08
 Identities = 25/78 (32%), Positives = 40/78 (51%)

Query:    27 EEAAKADQR----GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKREN 82
             E+AA   ++    GI YL  IPP   P+ +R +LS YGE+ R++   ED   +  +K   
Sbjct:    33 EDAAGGSKKRVVPGIVYLGHIPPRFRPLHVRNLLSAYGEVGRVFFQAEDGFVKRKKKAAA 92

Query:    83 RKRDGGFQDQGFSEGYKQ 100
                 GG +   +S+ Y +
Sbjct:    93 ASAAGGKKRSKYSKDYTE 110

GO:0005730 "nucleolus" evidence=IEA

GO:0021522 "spinal cord motor neuron differentiation" evidence=IEA

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

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by 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!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

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	154
cd12263	98	cd12263, RRM_ABT1_like, RNA recognition motif foun	8e-24
cd12244	79	cd12244, RRM2_MSSP, RNA recognition motif 2 in the	9e-04
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	0.001
smart00360	73	smart00360, RRM, RNA recognition motif	0.004

>gnl|CDD|240709 cd12263, RRM_ABT1_like, RNA recognition motif found in activator of basal transcription 1 (ABT1) and similar proteins

 Score = 88.4 bits (220), Expect = 8e-24
 Identities = 38/63 (60%), Positives = 48/63 (76%), Gaps = 5/63 (7%)

Query: 36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFS 95
          GI YLSRIPP M+P KLRQ+LSQYGE+ RIYL PEDP+     KR+ RK+ GG + + F+
Sbjct: 1  GIVYLSRIPPRMNPAKLRQLLSQYGEVGRIYLQPEDPA-----KRKRRKKKGGNKKKKFT 55

Query: 96 EGY 98
          EG+
Sbjct: 56 EGW 58

This subfamily corresponds to the RRM of novel nuclear proteins termed ABT1 and its homologous counterpart, pre-rRNA-processing protein ESF2 (eighteen S factor 2), from yeast. ABT1 associates with the TATA-binding protein (TBP) and enhances basal transcription activity of class II promoters. Meanwhile, ABT1 could be a transcription cofactor that can bind to DNA in a sequence-independent manner. The yeast ABT1 homolog, ESF2, is a component of 90S preribosomes and 5' ETS-based RNPs. It is previously identified as a putative partner of the TATA-element binding protein. However, it is primarily localized to the nucleolus and physically associates with pre-rRNA processing factors. ESF2 may play a role in ribosome biogenesis. It is required for normal pre-rRNA processing, as well as for SSU processome assembly and function. Both ABT1 and ESF2 contain an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 98

>gnl|CDD|240690 cd12244, RRM2_MSSP, RNA recognition motif 2 in the c-myc gene single-strand binding proteins (MSSP) family

 Score = 35.8 bits (83), Expect = 9e-04
 Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 9/51 (17%)

Query: 39 YLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGF 89
          Y+S +P HMD   L  +L  YG++          STR+LR  + + R  GF
Sbjct: 4  YISNLPLHMDEQDLETMLKPYGQVI---------STRILRDSKGQSRGVGF 45

This subfamily corresponds to the RRM2 of c-myc gene single-strand binding proteins (MSSP) family, including single-stranded DNA-binding protein MSSP-1 (also termed RBMS1 or SCR2) and MSSP-2 (also termed RBMS2 or SCR3). All MSSP family members contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), both of which are responsible for the specific DNA binding activity. Both, MSSP-1 and -2, have been identified as protein factors binding to a putative DNA replication origin/transcriptional enhancer sequence present upstream from the human c-myc gene in both single- and double-stranded forms. Thus they have been implied in regulating DNA replication, transcription, apoptosis induction, and cell-cycle movement, via the interaction with C-MYC, the product of protooncogene c-myc. Moreover, they family includes a new member termed RNA-binding motif, single-stranded-interacting protein 3 (RBMS3), which is not a transcriptional regulator. RBMS3 binds with high affinity to A/U-rich stretches of RNA, and to A/T-rich DNA sequences, and functions as a regulator of cytoplasmic activity. In addition, a putative meiosis-specific RNA-binding protein termed sporulation-specific protein 5 (SPO5, or meiotic RNA-binding protein 1, or meiotically up-regulated gene 12 protein), encoded by Schizosaccharomyces pombe Spo5/Mug12 gene, is also included in this family. SPO5 is a novel meiosis I regulator that may function in the vicinity of the Mei2 dot. . Length = 79

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

 Score = 35.4 bits (82), Expect = 0.001
 Identities = 11/51 (21%), Positives = 26/51 (50%), Gaps = 9/51 (17%)

Query: 39 YLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGF 89
          ++  +PP      LR++ S++GEI+ +         R++R ++ + +   F
Sbjct: 2  FVGNLPPDTTEEDLRELFSKFGEIESV---------RIVRDKDGKSKGFAF 43

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

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

 Score = 34.1 bits (79), Expect = 0.004
 Identities = 12/52 (23%), Positives = 27/52 (51%), Gaps = 10/52 (19%)

Query: 39 YLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDG-GF 89
          ++  +PP     +LR++ S++G+++ +         R++R +E  K  G  F
Sbjct: 3  FVGNLPPDTTEEELRELFSKFGKVESV---------RLVRDKETGKSKGFAF 45

Length = 73

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	154
KOG3152	278	consensus TBP-binding protein, activator of basal	99.94
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	98.29
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.09
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.08
smart00362	72	RRM_2 RNA recognition motif.	97.7
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	97.48
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	97.47
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	97.4
PLN03121	243	nucleic acid binding protein; Provisional	97.11
PLN03120	260	nucleic acid binding protein; Provisional	97.09
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	97.05
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	96.81
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	96.77
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	96.72
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	96.7
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	96.65
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	96.61
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	96.59
smart00360	71	RRM RNA recognition motif.	96.52
COG0724	306	RNA-binding proteins (RRM domain) [General functio	96.37
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	96.23
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	96.23
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	96.19
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	96.1
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	95.94
KOG0122	270	consensus Translation initiation factor 3, subunit	95.74
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	95.02
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	94.6
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	94.44
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	94.26
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	93.29
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	93.01
PLN03213	759	repressor of silencing 3; Provisional	92.63
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	92.06
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	91.78
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	91.11
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	90.9
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	90.8
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	90.03
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	89.78
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	88.45
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	87.74
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	86.04
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	85.95
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	85.21
KOG0533	243	consensus RRM motif-containing protein [RNA proces	84.8
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	84.66
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	84.27
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	82.9
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	81.87
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	80.66
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	80.63

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

Probab=99.94  E-value=1.8e-28  Score=208.93  Aligned_cols=88  Identities=50%  Similarity=0.796  Sum_probs=74.6

Q ss_pred             hcccchhhhHHHHHHHhhcCCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCc
Q 044301           14 SKHSKSKKKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQG   93 (154)
Q Consensus        14 ~k~~k~k~kk~l~k~~~k~~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~   93 (154)
                      .+..+..+...+.+..++..++||||||+|||+|+|.+||+||++||+||||||+||+.+.++.|+     ++||+..++
T Consensus        53 ~~~l~~~k~~~~~~a~~kkrk~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~-----~~~~n~~~~  127 (278)
T KOG3152|consen   53 EKELKEKKLTELSEAKAKKRKTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARK-----RKGGNYKKL  127 (278)
T ss_pred             hhhhhhhhhcccchhhhhhccceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHh-----hcCCCcccc
Confidence            333444555555556666679999999999999999999999999999999999999988776654     889999999


Q ss_pred             ccccceeeeeccc
Q 044301           94 FSEGYKQKVQQES  106 (154)
Q Consensus        94 FtEGWVEf~~k~~  106 (154)
                      |+||||||.+|..
T Consensus       128 y~EGWvEF~~Krv  140 (278)
T KOG3152|consen  128 YSEGWVEFISKRV  140 (278)
T ss_pred             chhHHHHHHHHHH
Confidence            9999999999876

>PF00076 RRM_1: RNA recognition motif

Probab=98.29  E-value=3.5e-07  Score=58.36  Aligned_cols=33  Identities=30%  Similarity=0.672  Sum_probs=31.8

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      |||+.||+.++...|+++|++||.|..+.+.+.
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~   33 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN   33 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhccccccccc
Confidence            799999999999999999999999999999886

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

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.09  E-value=3.2e-06  Score=55.17  Aligned_cols=50  Identities=22%  Similarity=0.475  Sum_probs=39.6

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeecc
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQE  105 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~  105 (154)
                      |||+.||+.+++..|+.+|+.||.|.+|++.....                  ......+||+|-+.+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~------------------~~~~~~a~v~f~~~~   50 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD------------------GQSRGFAFVEFSSEE   50 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT------------------SSEEEEEEEEESSHH
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec------------------cccCCEEEEEeCCHH
Confidence            79999999999999999999999999999987522                  123456999997644

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 ....

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

Probab=98.08  E-value=2.8e-06  Score=71.43  Aligned_cols=57  Identities=23%  Similarity=0.451  Sum_probs=47.2

Q ss_pred             cCCcceEEecCCCCCCCHHHHHHHHhcc-CccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeecc
Q 044301           32 ADQRGICYLSRIPPHMDPVKLRQILSQY-GEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQE  105 (154)
Q Consensus        32 ~~k~GVIYlSrIPp~M~p~klR~llsqf-GeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~  105 (154)
                      ....||+|+.|||.+++.+.+..+|.|| |.|.|++|++.             +|+|.++.+.|    |||-+.+
T Consensus        46 ~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRn-------------krTGNSKgYAF----VEFEs~e  103 (214)
T KOG4208|consen   46 QEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRN-------------KRTGNSKGYAF----VEFESEE  103 (214)
T ss_pred             cCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecc-------------cccCCcCceEE----EEeccHH
Confidence            3578999999999999999999999999 99999999876             26777776655    5666544

>smart00362 RRM_2 RNA recognition motif

Probab=97.70  E-value=6.8e-05  Score=46.11  Aligned_cols=34  Identities=18%  Similarity=0.628  Sum_probs=31.8

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      |||+.||+.++...|+++|++||.|.++++....
T Consensus         2 v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~   35 (72)
T smart00362        2 LFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT   35 (72)
T ss_pred             EEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC
Confidence            8999999999999999999999999999988763

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=97.48  E-value=9.8e-05  Score=61.25  Aligned_cols=37  Identities=19%  Similarity=0.390  Sum_probs=34.1

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      +--||++.||+.++...|+++|++||+|.+|+|....
T Consensus         3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~   39 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDK   39 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcC
Confidence            4469999999999999999999999999999998864

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

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

Probab=97.47  E-value=0.0002  Score=44.25  Aligned_cols=52  Identities=13%  Similarity=0.447  Sum_probs=41.9

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeeccc
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQES  106 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~  106 (154)
                      .|||+.||+.++...|+++|++||.|.++++......                  ....-+|++|-+.+.
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~------------------~~~~~~~v~f~s~~~   52 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT------------------KSKGFAFVEFEDEED   52 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC------------------CcceEEEEEECCHHH
Confidence            4899999999999999999999999999999876432                  123347899876543

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).

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

Probab=97.40  E-value=0.00015  Score=55.91  Aligned_cols=37  Identities=11%  Similarity=0.268  Sum_probs=33.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||..+++..|+++|++||.|.++.+...
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d   69 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVD   69 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEec
Confidence            3557999999999999999999999999999999764

>PLN03121 nucleic acid binding protein; Provisional

Probab=97.11  E-value=0.00056  Score=58.54  Aligned_cols=34  Identities=12%  Similarity=0.307  Sum_probs=32.9

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .||++.|++..++..||.+||.||+|..|+|.+.
T Consensus         7 TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D   40 (243)
T PLN03121          7 TAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRS   40 (243)
T ss_pred             EEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecC
Confidence            7999999999999999999999999999999976

>PLN03120 nucleic acid binding protein; Provisional

Probab=97.09  E-value=0.00054  Score=59.03  Aligned_cols=34  Identities=15%  Similarity=0.284  Sum_probs=32.2

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -||++.||+..+...|+.+|+.||+|.+|.|...
T Consensus         6 tVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d   39 (260)
T PLN03120          6 TVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSE   39 (260)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeec
Confidence            5899999999999999999999999999999765

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=97.05  E-value=0.00084  Score=55.75  Aligned_cols=35  Identities=17%  Similarity=0.429  Sum_probs=33.0

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      .|||++||+.++...|+++|++||.|.++.+....
T Consensus       271 ~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~  305 (352)
T TIGR01661       271 CIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDL  305 (352)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcC
Confidence            59999999999999999999999999999998753

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

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

Probab=96.81  E-value=0.0015  Score=58.36  Aligned_cols=34  Identities=15%  Similarity=0.396  Sum_probs=32.0

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      =||||+.||..++...|+++|++||.|.+|.+.+
T Consensus         3 ~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~   36 (481)
T TIGR01649         3 PVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLP   36 (481)
T ss_pred             cEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEEC
Confidence            3899999999999999999999999999999874

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).

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=96.77  E-value=0.0014  Score=57.37  Aligned_cols=36  Identities=14%  Similarity=0.230  Sum_probs=33.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..+.|...
T Consensus       107 ~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d  142 (346)
T TIGR01659       107 GTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRD  142 (346)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEec
Confidence            457999999999999999999999999999999764

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).

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

Probab=96.72  E-value=0.0016  Score=57.97  Aligned_cols=34  Identities=29%  Similarity=0.538  Sum_probs=32.6

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .+||++|+-..++.+|+..|+.||.|-||+|+..
T Consensus       103 TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d  136 (335)
T KOG0113|consen  103 TLFVARLNYDTSESKLRREFEKYGPIKRIRLVRD  136 (335)
T ss_pred             eeeeeeccccccHHHHHHHHHhcCcceeEEEeee
Confidence            4899999999999999999999999999999986

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

Probab=96.70  E-value=0.0015  Score=58.67  Aligned_cols=35  Identities=14%  Similarity=0.450  Sum_probs=32.8

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      -|||+.||+.++...|+++|++||+|..|++.+..
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~   36 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDS   36 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecC
Confidence            48999999999999999999999999999998764

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=96.65  E-value=0.0016  Score=57.02  Aligned_cols=36  Identities=19%  Similarity=0.435  Sum_probs=32.9

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .--|||+.||..++...|+++|++||+|.++.|.+.
T Consensus       193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d  228 (346)
T TIGR01659       193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRD  228 (346)
T ss_pred             cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeec
Confidence            346999999999999999999999999999999764

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=96.61  E-value=0.0023  Score=55.43  Aligned_cols=36  Identities=22%  Similarity=0.404  Sum_probs=33.5

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..|.|...
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d  221 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRD  221 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEc
Confidence            367999999999999999999999999999999865

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.

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

Probab=96.59  E-value=0.0018  Score=61.34  Aligned_cols=37  Identities=19%  Similarity=0.459  Sum_probs=34.1

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      ...||++.||+.++...|+++|++||+|.+++|.+..
T Consensus       204 ~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~  240 (612)
T TIGR01645       204 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAP  240 (612)
T ss_pred             cceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecC
Confidence            3579999999999999999999999999999998753

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.

>smart00360 RRM RNA recognition motif

Probab=96.52  E-value=0.0035  Score=38.12  Aligned_cols=31  Identities=26%  Similarity=0.708  Sum_probs=28.6

Q ss_pred             ecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           40 LSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        40 lSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      |+.||..++...|+++|++||.|..+.+.+.
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~   31 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRD   31 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeC
Confidence            5789999999999999999999999988765

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

Probab=96.37  E-value=0.0064  Score=44.96  Aligned_cols=36  Identities=17%  Similarity=0.539  Sum_probs=34.1

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||...+...|+.+|.+||.|.+|++...
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d  150 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRD  150 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeec
Confidence            489999999999999999999999999999999876

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

Probab=96.23  E-value=0.01  Score=56.40  Aligned_cols=38  Identities=16%  Similarity=0.290  Sum_probs=35.0

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ....-||++.||..++...|+++|++||.|.+|++...
T Consensus       105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D  142 (612)
T TIGR01645       105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWD  142 (612)
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeec
Confidence            45678999999999999999999999999999999774

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.

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

Probab=96.23  E-value=0.0058  Score=53.53  Aligned_cols=36  Identities=14%  Similarity=0.509  Sum_probs=33.0

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      +-.|||+.||..++...|+++|++||.|..+.|...
T Consensus       295 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~  330 (509)
T TIGR01642       295 KDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKD  330 (509)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEec
Confidence            457999999999999999999999999999998764

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

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

Probab=96.19  E-value=0.0059  Score=54.83  Aligned_cols=37  Identities=19%  Similarity=0.335  Sum_probs=33.6

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..+.|||+.||+.++...|+.+|+.||.|..+.+...
T Consensus        87 ~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~  123 (562)
T TIGR01628        87 GVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATD  123 (562)
T ss_pred             CCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeec
Confidence            3578999999999999999999999999999988654

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

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

Probab=96.10  E-value=0.0067  Score=54.32  Aligned_cols=36  Identities=14%  Similarity=0.360  Sum_probs=32.8

Q ss_pred             cceEEecCCCC-CCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPP-HMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp-~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-+|||+.||+ .+++..|+.||++||+|.+|.+...
T Consensus       275 ~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~  311 (481)
T TIGR01649       275 GSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN  311 (481)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC
Confidence            34999999998 6999999999999999999999764

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).

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

Probab=95.94  E-value=0.01  Score=51.46  Aligned_cols=35  Identities=9%  Similarity=0.248  Sum_probs=32.7

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      =.|||+.||..++...|+++|++||.|..|.|...
T Consensus        90 ~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d  124 (457)
T TIGR01622        90 RTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKD  124 (457)
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeec
Confidence            36999999999999999999999999999999764

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.

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

Probab=95.74  E-value=0.01  Score=51.64  Aligned_cols=38  Identities=21%  Similarity=0.490  Sum_probs=34.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccCCC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDP   72 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~   72 (154)
                      .--|-|+.||-.|+...|+.||-.||.|.||||+....
T Consensus       189 ~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~  226 (270)
T KOG0122|consen  189 EATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKE  226 (270)
T ss_pred             cceeEEecCccccChhHHHHHhhccCccceeEEEEccc
Confidence            34599999999999999999999999999999998743

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

Probab=95.02  E-value=0.031  Score=52.73  Aligned_cols=35  Identities=17%  Similarity=0.322  Sum_probs=32.5

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      --|||++||+.++...|+++|++||.|-.+.|...
T Consensus        59 ~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D   93 (578)
T TIGR01648        59 CEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD   93 (578)
T ss_pred             CEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC
Confidence            36999999999999999999999999999998765

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

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

Probab=94.60  E-value=0.034  Score=49.35  Aligned_cols=36  Identities=22%  Similarity=0.400  Sum_probs=33.0

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ---||.+.|+++++...||+.||+||.|.-|++-+.
T Consensus       164 NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~  199 (321)
T KOG0148|consen  164 NTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD  199 (321)
T ss_pred             CceEEeCCcCccccHHHHHHhcccCCcceEEEEecc
Confidence            356999999999999999999999999999988765

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

Probab=94.44  E-value=0.0091  Score=50.48  Aligned_cols=39  Identities=26%  Similarity=0.459  Sum_probs=36.1

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      ....-|||+.||--+++..|--.|||||+|-.|-|.+..
T Consensus        33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk   71 (219)
T KOG0126|consen   33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDK   71 (219)
T ss_pred             ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecC
Confidence            457899999999999999999999999999999999873

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

Probab=94.26  E-value=0.044  Score=51.10  Aligned_cols=34  Identities=24%  Similarity=0.571  Sum_probs=31.9

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      +|++.||..|++..||+||++||.|.-|-|-+..
T Consensus        37 lfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk   70 (510)
T KOG0144|consen   37 LFVGQIPRTASEKDLRELFEKYGNVYEINLIKDK   70 (510)
T ss_pred             heeccCCccccHHHHHHHHHHhCceeEEEeeccc
Confidence            7999999999999999999999999999998753

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

Probab=93.29  E-value=0.11  Score=40.74  Aligned_cols=38  Identities=18%  Similarity=0.495  Sum_probs=34.8

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccCCC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDP   72 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~   72 (154)
                      .-|+||-.+|-..+-.++..||..||.|-.|++--+..
T Consensus        18 nriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~   55 (124)
T KOG0114|consen   18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE   55 (124)
T ss_pred             heeEEEecCCccccHHHHHHHhhcccceEEEEecCccC
Confidence            56999999999999999999999999999999987643

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

Probab=93.01  E-value=0.063  Score=47.84  Aligned_cols=31  Identities=32%  Similarity=0.504  Sum_probs=27.7

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccc
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQ   63 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~   63 (154)
                      -+-.-+|+|-||.-|+-..|.+||++||.|=
T Consensus       125 Ik~aNLYvSGlPktMtqkelE~iFs~fGrII  155 (360)
T KOG0145|consen  125 IKDANLYVSGLPKTMTQKELEQIFSPFGRII  155 (360)
T ss_pred             hcccceEEecCCccchHHHHHHHHHHhhhhh
Confidence            3566799999999999999999999999863

>PLN03213 repressor of silencing 3; Provisional

Probab=92.63  E-value=0.14  Score=49.09  Aligned_cols=34  Identities=12%  Similarity=0.164  Sum_probs=32.1

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      =||++.|+...+...|+.+|++||.|.+++|.++
T Consensus        12 RIYVGNLSydVTEDDLravFSeFGsVkdVEIpRE   45 (759)
T PLN03213         12 RLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRT   45 (759)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecc
Confidence            4999999999999999999999999999999844

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

Probab=92.06  E-value=0.18  Score=47.65  Aligned_cols=33  Identities=15%  Similarity=0.348  Sum_probs=30.4

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhcc--CccceEEe
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQY--GEIQRIYL   67 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqf--GeI~RIyL   67 (154)
                      .-+|||+.||..+++..|+++|++|  |+|.+|.+
T Consensus       233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~  267 (578)
T TIGR01648       233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKK  267 (578)
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEe
Confidence            4579999999999999999999999  99999854

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.

>PF13893 RRM_5: RNA recognition motif

Probab=91.78  E-value=0.14  Score=32.31  Aligned_cols=20  Identities=25%  Similarity=0.639  Sum_probs=16.9

Q ss_pred             HHHHHhccCccceEEeccCC
Q 044301           52 LRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        52 lR~llsqfGeI~RIyL~pEd   71 (154)
                      |+++|++||+|.+|.+.+..
T Consensus         1 L~~~f~~fG~V~~i~~~~~~   20 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK   20 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS
T ss_pred             ChHHhCCcccEEEEEEEeCC
Confidence            68999999999999998763

(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 ....

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

Probab=91.11  E-value=0.29  Score=42.95  Aligned_cols=24  Identities=17%  Similarity=0.315  Sum_probs=22.5

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYG   60 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfG   60 (154)
                      -|||+.||+.++...|+.+|++|+
T Consensus       177 ~lyVgnLp~~~t~~~l~~~F~~~~  200 (509)
T TIGR01642       177 RLYVGGIPPEFVEEAVVDFFNDLM  200 (509)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHHH
Confidence            499999999999999999999974

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

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

Probab=90.90  E-value=0.32  Score=45.24  Aligned_cols=63  Identities=19%  Similarity=0.373  Sum_probs=47.4

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeecccCCCCCCCC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQESQTHPELPG  114 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~g~~~e~~~  114 (154)
                      =--||+++|.|.++.+.|+..|+.||+|-..-|.+.... +            |++++    |+.||-++.+..++-++-
T Consensus       210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~-~------------~HkGy----GfiEy~n~qs~~eAiasM  272 (544)
T KOG0124|consen  210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTG-R------------GHKGY----GFIEYNNLQSQSEAIASM  272 (544)
T ss_pred             hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCC-C------------Cccce----eeEEeccccchHHHhhhc
Confidence            345999999999999999999999999999888876322 1            23333    778888777666544443

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

Probab=90.80  E-value=0.26  Score=39.91  Aligned_cols=40  Identities=15%  Similarity=0.335  Sum_probs=35.2

Q ss_pred             hcCCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           31 KADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        31 k~~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...+.-.||+|+|.=+-++.+|.+|||..|+|-||-+--.
T Consensus        32 a~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLd   71 (153)
T KOG0121|consen   32 ALRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLD   71 (153)
T ss_pred             HHhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccc
Confidence            3456788999999999999999999999999999977543

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

Probab=90.03  E-value=0.39  Score=44.00  Aligned_cols=33  Identities=21%  Similarity=0.572  Sum_probs=31.3

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ||+..||+.-++..|.+.|.+||+|...+++.-
T Consensus       291 i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr  323 (419)
T KOG0116|consen  291 IFVKNLPPDATPAELEEVFKQFGPIKEGGIQVR  323 (419)
T ss_pred             eEeecCCCCCCHHHHHHHHhhcccccccceEEe
Confidence            999999999999999999999999999988764

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

Probab=89.78  E-value=0.31  Score=41.68  Aligned_cols=36  Identities=19%  Similarity=0.463  Sum_probs=32.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..+-||+++||+......|..||.+||.|.-|=|.-
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~   40 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKN   40 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhhcceEEEEecc
Confidence            467899999999999999999999999999998863

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

Probab=88.45  E-value=1  Score=43.53  Aligned_cols=39  Identities=21%  Similarity=0.318  Sum_probs=35.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccCCCc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPS   73 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~   73 (154)
                      +-.+|+|+||...+-.+|-.+||.+|.|.+-|+.-+..+
T Consensus         5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs   43 (678)
T KOG0127|consen    5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGS   43 (678)
T ss_pred             CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCc
Confidence            357999999999999999999999999999999987543

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

Probab=87.74  E-value=0.46  Score=43.19  Aligned_cols=37  Identities=19%  Similarity=0.326  Sum_probs=32.3

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      +-+=-+|+|.||=.|....||++|.+||.|-.|=+.=
T Consensus        94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIf  130 (376)
T KOG0125|consen   94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIF  130 (376)
T ss_pred             CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEe
Confidence            4566799999999999999999999999998876554

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

Probab=86.04  E-value=1  Score=37.84  Aligned_cols=34  Identities=18%  Similarity=0.476  Sum_probs=32.2

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -||++.||...+...|-.+|+.||.|--|+++..
T Consensus        12 kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn   45 (195)
T KOG0107|consen   12 KVYVGNLGSRATKRELERAFSKYGPLRSVWVARN   45 (195)
T ss_pred             eEEeccCCCCcchHHHHHHHHhcCcceeEEEeec
Confidence            4999999999999999999999999999999874

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

Probab=85.95  E-value=0.34  Score=45.42  Aligned_cols=35  Identities=17%  Similarity=0.473  Sum_probs=32.8

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCCC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDP   72 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~   72 (154)
                      +||+-|+..-++..||+||++||.|..+|+.+.+.
T Consensus       127 LFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~  161 (510)
T KOG0144|consen  127 LFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPD  161 (510)
T ss_pred             hhhhhccccccHHHHHHHHHhhCccchhhheeccc
Confidence            69999999999999999999999999999998654

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

Probab=85.21  E-value=0.88  Score=38.85  Aligned_cols=34  Identities=24%  Similarity=0.499  Sum_probs=30.0

Q ss_pred             cceEEecCCCCCCCHHHHHH----HHhccCccceEEec
Q 044301           35 RGICYLSRIPPHMDPVKLRQ----ILSQYGEIQRIYLA   68 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~----llsqfGeI~RIyL~   68 (154)
                      -|-|||.+|+-..+-..|+.    ||||||+|-.|-.-
T Consensus         9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~   46 (221)
T KOG4206|consen    9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAF   46 (221)
T ss_pred             CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEec
Confidence            35899999999999999998    99999999887654

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

Probab=84.80  E-value=0.99  Score=38.70  Aligned_cols=38  Identities=16%  Similarity=0.408  Sum_probs=34.1

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..+.-|||+.+|.+.....|++||.+||++.|+.|...
T Consensus        81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~  118 (243)
T KOG0533|consen   81 TRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYD  118 (243)
T ss_pred             CCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccC
Confidence            34567999999999999999999999999999988875

>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=84.66  E-value=1.1  Score=33.22  Aligned_cols=34  Identities=18%  Similarity=0.317  Sum_probs=22.1

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ||+|+-++..++-..|+..|++||.|.-|-+++-
T Consensus         3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G   36 (105)
T PF08777_consen    3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG   36 (105)
T ss_dssp             EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT
T ss_pred             EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC
Confidence            7888889999999999999999999988877664

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

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

Probab=84.27  E-value=0.73  Score=43.30  Aligned_cols=33  Identities=12%  Similarity=0.424  Sum_probs=30.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEe
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL   67 (154)
                      ==|+|+-+||--.+...|..+|++||.|.||--
T Consensus       259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk  291 (506)
T KOG0117|consen  259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKK  291 (506)
T ss_pred             eeeeeeeccchhhhHHHHHHHHHhccceEEeec
Confidence            348999999999999999999999999999854

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

Probab=82.90  E-value=1.2  Score=39.25  Aligned_cols=35  Identities=11%  Similarity=0.463  Sum_probs=31.4

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      .|+++.||++.....+|++|.|||.|.++=+.-..
T Consensus        99 kiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~  133 (311)
T KOG4205|consen   99 KIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDK  133 (311)
T ss_pred             EEEecCcCCCCchHHHhhhhhccceeEeeEEeecc
Confidence            89999999999999999999999988887666543

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

Probab=81.87  E-value=1.6  Score=41.15  Aligned_cols=55  Identities=16%  Similarity=0.263  Sum_probs=43.8

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeecccCC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQESQT  108 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~g~  108 (154)
                      =|||+.||..+.+..|.-||..-|+|--++|.-+..             +|.|+.+.|    |-|..|+.-+
T Consensus        85 EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~-------------sG~nRGYAF----Vtf~~Ke~Aq  139 (506)
T KOG0117|consen   85 EVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPF-------------SGDNRGYAF----VTFCTKEEAQ  139 (506)
T ss_pred             eEEecCCCccccchhhHHHHHhccceeeEEEeeccc-------------CCCCcceEE----EEeecHHHHH
Confidence            599999999999999999999999999999998732             233555555    5677666533

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

Probab=80.66  E-value=1  Score=40.54  Aligned_cols=28  Identities=21%  Similarity=0.578  Sum_probs=25.7

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceE
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRI   65 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RI   65 (154)
                      +||+.+|.--+..+||+||.+||.|.--
T Consensus         5 LFIGNLp~~~~~~elr~lFe~ygkVlEC   32 (346)
T KOG0109|consen    5 LFIGNLPREATEQELRSLFEQYGKVLEC   32 (346)
T ss_pred             hhccCCCcccchHHHHHHHHhhCceEee
Confidence            6899999999999999999999998653

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

Probab=80.63  E-value=2.4  Score=39.12  Aligned_cols=35  Identities=20%  Similarity=0.283  Sum_probs=33.0

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..||+++||.-++...|..+|+..|.|--+.|.-.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D   53 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYD   53 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeeccc
Confidence            78999999999999999999999999999999764

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	154
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	98.12
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	98.05
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	98.05
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	98.02
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	98.02
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	98.01
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	98.0
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	97.99
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	97.97
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	97.97
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	97.96
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	97.96
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	97.95
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	97.92
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	97.92
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	97.9
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	97.9
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	97.89
1x4e_A	85	RNA binding motif, single-stranded interacting pro	97.89
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	97.87
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	97.85
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	97.84
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	97.84
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	97.84
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	97.84
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	97.83
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	97.83
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	97.83
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	97.82
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	97.82
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	97.82
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	97.82
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	97.81
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	97.81
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	97.81
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	97.8
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	97.8
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	97.8
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	97.79
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	97.79
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	97.79
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	97.78
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	97.77
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	97.77
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	97.76
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	97.76
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	97.75
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	97.74
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	97.74
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	97.74
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	97.74
2div_A	99	TRNA selenocysteine associated protein; structural	97.74
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	97.72
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	97.71
1x5o_A	114	RNA binding motif, single-stranded interacting pro	97.71
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	97.71
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	97.71
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	97.7
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	97.7
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	97.7
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	97.69
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	97.69
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	97.69
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	97.68
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	97.68
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	97.68
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	97.67
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	97.67
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	97.67
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	97.66
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	97.66
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	97.66
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	97.66
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	97.66
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	97.65
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	97.65
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	97.65
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	97.65
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	97.65
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	97.65
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	97.64
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	97.64
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	97.64
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	97.64
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	97.63
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	97.63
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	97.63
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	97.62
2dis_A	109	Unnamed protein product; structural genomics, RRM	97.61
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	97.61
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	97.61
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	97.61
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	97.61
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	97.61
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	97.6
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	97.59
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	97.59
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	97.59
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	97.58
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	97.56
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	97.55
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	97.55
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	97.54
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	97.53
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	97.53
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	97.52
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	97.52
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	97.51
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	97.49
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	97.49
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	97.48
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	97.48
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	97.47
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	97.47
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	97.46
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	97.46
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	97.45
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	97.45
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	97.45
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	97.44
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	97.44
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	97.44
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	97.44
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	97.43
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	97.43
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	97.42
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	97.41
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	97.4
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	97.38
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	97.38
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	97.38
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	97.37
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	97.37
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	97.36
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	97.36
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	97.35
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	97.32
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	97.32
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	97.31
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	97.3
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	97.3
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	97.29
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	97.28
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	97.27
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	97.2
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	96.28
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	97.18
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	97.14
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	97.1
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	97.1
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	97.09
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	97.09
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	97.09
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	97.08
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	97.08
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	97.06
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	97.06
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	97.05
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	97.04
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	97.01
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	96.99
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	96.98
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	96.98
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	96.96
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	96.94
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	96.92
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	96.88
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	96.88
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	96.87
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	96.8
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	96.8
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	96.79
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	96.76
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	96.75
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	96.74
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	96.71
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	96.7
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	96.69
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	96.68
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	96.64
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	96.64
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	96.64
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	96.61
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	96.58
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	96.56
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	96.31
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	96.3
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	96.23
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	96.13
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	96.01
1x5p_A	97	Negative elongation factor E; structure genomics,	95.9
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	95.82
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	95.71
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	95.66
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	95.11
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	94.75
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	93.95
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	93.91
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	93.75
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	93.68
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	93.12
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	92.79
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	92.69
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	92.12
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	90.14
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	89.12
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	86.05
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	85.78
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	84.5
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	84.26
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	82.74

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

Probab=98.12  E-value=1.5e-06  Score=56.07  Aligned_cols=33  Identities=9%  Similarity=0.322  Sum_probs=31.3

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      |||+.||+.++...|+++|++||+|..+.+...
T Consensus         2 l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   34 (75)
T 2mss_A            2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFD   34 (75)
T ss_dssp             EEEECCCSSCCHHHHHHHHHTTSCCSEECCCBC
T ss_pred             EEEecCCCCCCHHHHHHHHHhcCCEEEEEEEec
Confidence            899999999999999999999999999998765

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

Probab=98.05  E-value=2.4e-06  Score=54.97  Aligned_cols=33  Identities=15%  Similarity=0.394  Sum_probs=31.5

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      |||+.||+.++...|+++|++||+|..+.+...
T Consensus         3 l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~   35 (77)
T 1uaw_A            3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRD   35 (77)
T ss_dssp             EEEESCCSSCCSHHHHHHHTTTSCCCCEEEECC
T ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecC
Confidence            899999999999999999999999999999765

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=98.05  E-value=2.6e-06  Score=56.35  Aligned_cols=38  Identities=11%  Similarity=0.333  Sum_probs=35.0

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..+.+...
T Consensus         9 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   46 (87)
T 3s7r_A            9 EDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMD   46 (87)
T ss_dssp             SCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeec
Confidence            45678999999999999999999999999999999765

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A*

Probab=98.02  E-value=3.1e-06  Score=55.39  Aligned_cols=38  Identities=16%  Similarity=0.396  Sum_probs=34.5

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|.+...
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~   42 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLD   42 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEEC
Confidence            34568999999999999999999999999999999764

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

Probab=98.02  E-value=3.2e-06  Score=57.73  Aligned_cols=35  Identities=20%  Similarity=0.315  Sum_probs=32.4

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccC-ccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYG-EIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfG-eI~RIyL~pE   70 (154)
                      -+|||+.||+.++...|+++|++|| +|..|+|...
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d   37 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRN   37 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEec
Confidence            3799999999999999999999999 8999998764

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=98.01  E-value=3.3e-06  Score=55.44  Aligned_cols=36  Identities=8%  Similarity=0.327  Sum_probs=33.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..|.+...
T Consensus         6 ~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   41 (87)
T 3bs9_A            6 HFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKD   41 (87)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEec
Confidence            447999999999999999999999999999999765

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A

Probab=98.00  E-value=4.5e-06  Score=55.03  Aligned_cols=35  Identities=11%  Similarity=0.223  Sum_probs=32.9

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||+.++...|+++|++||.|..+++...
T Consensus         7 ~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   41 (89)
T 3ucg_A            7 RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCD   41 (89)
T ss_dssp             TEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEES
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEec
Confidence            46999999999999999999999999999999865

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.99  E-value=4.4e-06  Score=55.78  Aligned_cols=37  Identities=22%  Similarity=0.542  Sum_probs=34.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|.+|++...
T Consensus        15 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~   51 (94)
T 2e5h_A           15 SKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKD   51 (94)
T ss_dssp             CTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeC
Confidence            4568999999999999999999999999999999775

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

Probab=97.97  E-value=5.2e-06  Score=56.57  Aligned_cols=38  Identities=21%  Similarity=0.451  Sum_probs=34.7

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|+|...
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~   48 (103)
T 2dnm_A           11 DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPRE   48 (103)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeC
Confidence            34578999999999999999999999999999999765

>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=97.97  E-value=3.7e-06  Score=60.25  Aligned_cols=35  Identities=14%  Similarity=0.206  Sum_probs=32.9

Q ss_pred             cceEEecCCCC-CCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPP-HMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp-~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .-+|||++||. .++...|+++|++||+|..|+|.+
T Consensus        15 ~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~   50 (102)
T 1x4d_A           15 RRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILN   50 (102)
T ss_dssp             CCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECS
T ss_pred             CCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEc
Confidence            45899999999 999999999999999999999975

>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=97.96  E-value=4.3e-06  Score=54.48  Aligned_cols=34  Identities=9%  Similarity=0.127  Sum_probs=32.0

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -|||+.||+.++...|+++|++||.|..+++...
T Consensus         3 ~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~   36 (83)
T 3md1_A            3 NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWD   36 (83)
T ss_dssp             EEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEc
Confidence            4899999999999999999999999999999765

>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=97.96  E-value=5.8e-06  Score=57.49  Aligned_cols=35  Identities=23%  Similarity=0.391  Sum_probs=32.8

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      --|||+.||+.++...|+++|++||+|..|+|...
T Consensus        20 t~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d   54 (99)
T 4fxv_A           20 TNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRD   54 (99)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeec
Confidence            36999999999999999999999999999999864

>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=97.95  E-value=9.3e-06  Score=52.08  Aligned_cols=33  Identities=21%  Similarity=0.522  Sum_probs=31.3

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      |||+.||+.++...|+++|++||+|..+.+...
T Consensus         2 l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   34 (75)
T 1iqt_A            2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMD   34 (75)
T ss_dssp             EEESCCCSSCCHHHHHHHHHHHSCCSEECCCCS
T ss_pred             EEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec
Confidence            899999999999999999999999999998765

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=97.92  E-value=5.7e-06  Score=57.66  Aligned_cols=37  Identities=8%  Similarity=0.236  Sum_probs=34.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||+|.+|++...
T Consensus        39 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~   75 (118)
T 2khc_A           39 EGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFID   75 (118)
T ss_dssp             CSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeC
Confidence            3467999999999999999999999999999999865

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.92  E-value=4.9e-06  Score=56.90  Aligned_cols=38  Identities=24%  Similarity=0.387  Sum_probs=34.8

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||+|..|+|...
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~   51 (105)
T 2dh8_A           14 DEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKD   51 (105)
T ss_dssp             SSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC
Confidence            34678999999999999999999999999999999775

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

Probab=97.90  E-value=6e-06  Score=55.03  Aligned_cols=36  Identities=17%  Similarity=0.243  Sum_probs=33.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|.+|.+...
T Consensus        15 ~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~   50 (95)
T 2cqc_A           15 NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYD   50 (95)
T ss_dssp             GGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEEC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEc
Confidence            457999999999999999999999999999999765

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

Probab=97.90  E-value=7.9e-06  Score=55.76  Aligned_cols=36  Identities=19%  Similarity=0.380  Sum_probs=33.4

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..|+|...
T Consensus        23 ~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~   58 (106)
T 1p27_B           23 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLD   58 (106)
T ss_dssp             BEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEec
Confidence            457999999999999999999999999999999765

>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=97.89  E-value=9.8e-06  Score=54.13  Aligned_cols=37  Identities=8%  Similarity=0.279  Sum_probs=34.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|.+|+|...
T Consensus        15 ~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~   51 (95)
T 2ywk_A           15 ADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKD   51 (95)
T ss_dssp             GGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEEC
Confidence            4568999999999999999999999999999999775

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.89  E-value=8.7e-06  Score=53.53  Aligned_cols=37  Identities=16%  Similarity=0.249  Sum_probs=34.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|.++.+...
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~   40 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILD   40 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec
Confidence            3457999999999999999999999999999999775

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

Probab=97.87  E-value=1.5e-05  Score=57.63  Aligned_cols=35  Identities=14%  Similarity=0.294  Sum_probs=32.7

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .=+||++.||...+...|+++|++||.|..+.+.+
T Consensus        21 s~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~   55 (100)
T 3r27_A           21 SPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP   55 (100)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEET
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEc
Confidence            45899999999999999999999999999999864

>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=97.85  E-value=1.1e-05  Score=58.67  Aligned_cols=37  Identities=16%  Similarity=0.433  Sum_probs=34.5

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ....|||+.||+.++...|+++|++||+|.+|+|...
T Consensus        69 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~  105 (158)
T 2kn4_A           69 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRD  105 (158)
T ss_dssp             BCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeec
Confidence            3679999999999999999999999999999999775

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

Probab=97.84  E-value=7.8e-06  Score=54.88  Aligned_cols=36  Identities=25%  Similarity=0.411  Sum_probs=32.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceE-Eecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRI-YLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RI-yL~p   69 (154)
                      ..-.|||+.||+.++...|+++|++||.|..+ ++..
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~   50 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNT   50 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECC
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeec
Confidence            45679999999999999999999999999999 4544

>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=97.84  E-value=1.8e-05  Score=53.82  Aligned_cols=36  Identities=17%  Similarity=0.330  Sum_probs=33.0

Q ss_pred             cceEEecCCCCCCCHHHHH----HHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLR----QILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR----~llsqfGeI~RIyL~pE   70 (154)
                      .--|||+.||..++...|+    ++|++||+|..|++...
T Consensus         9 ~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~   48 (96)
T 2dgx_A            9 GADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPH   48 (96)
T ss_dssp             CEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeC
Confidence            3469999999999999999    99999999999999765

>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=97.84  E-value=1.7e-05  Score=54.59  Aligned_cols=36  Identities=22%  Similarity=0.528  Sum_probs=32.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|++..
T Consensus        21 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~   56 (109)
T 1x4a_A           21 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKN   56 (109)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEE
Confidence            356899999999999999999999999999999943

>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=97.84  E-value=1.6e-05  Score=55.15  Aligned_cols=36  Identities=11%  Similarity=0.385  Sum_probs=33.4

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||..++...|+++|++||.|..|.|...
T Consensus        25 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   60 (114)
T 2cq4_A           25 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISD   60 (114)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEec
Confidence            357999999999999999999999999999999765

>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=97.83  E-value=1.2e-05  Score=54.75  Aligned_cols=37  Identities=5%  Similarity=0.175  Sum_probs=34.3

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|+|...
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   50 (105)
T 2dnh_A           14 RDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRG   50 (105)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC
Confidence            4568999999999999999999999999999999775

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.83  E-value=3e-05  Score=52.54  Aligned_cols=38  Identities=18%  Similarity=0.468  Sum_probs=35.0

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|+|...
T Consensus        10 ~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~   47 (102)
T 1x5s_A           10 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKD   47 (102)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeC
Confidence            45678999999999999999999999999999999765

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=97.83  E-value=1e-05  Score=56.09  Aligned_cols=37  Identities=8%  Similarity=0.345  Sum_probs=34.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|.|...
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   50 (115)
T 2dgo_A           14 NHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKD   50 (115)
T ss_dssp             TCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEc
Confidence            4567999999999999999999999999999999765

>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=97.82  E-value=2.3e-05  Score=52.88  Aligned_cols=34  Identities=18%  Similarity=0.354  Sum_probs=32.3

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .|||+.||+.++...|+++|++||.|.+|++...
T Consensus         4 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   37 (96)
T 2x1f_A            4 VVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFD   37 (96)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBC
T ss_pred             EEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeC
Confidence            6999999999999999999999999999999765

>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=97.82  E-value=2e-05  Score=53.76  Aligned_cols=38  Identities=16%  Similarity=0.461  Sum_probs=34.5

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||+|..|+|...
T Consensus        11 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   48 (106)
T 2dgp_A           11 HDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKD   48 (106)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEec
Confidence            34567999999999999999999999999999999765

>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=97.82  E-value=8.9e-06  Score=55.18  Aligned_cols=35  Identities=20%  Similarity=0.372  Sum_probs=32.7

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||+.++...|+++|++||.|..|++...
T Consensus         9 ~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~   43 (104)
T 1p1t_A            9 RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYD   43 (104)
T ss_dssp             SCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEE
T ss_pred             cEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeC
Confidence            46999999999999999999999999999999765

>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=97.82  E-value=2.5e-05  Score=53.20  Aligned_cols=38  Identities=13%  Similarity=0.274  Sum_probs=34.7

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|++...
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   50 (105)
T 1x5u_A           13 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKD   50 (105)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec
Confidence            34568999999999999999999999999999999765

>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=97.81  E-value=9.2e-06  Score=59.47  Aligned_cols=35  Identities=20%  Similarity=0.344  Sum_probs=32.5

Q ss_pred             CcceEEecCCCCC-CCHHHHHHHHhccCccceEEec
Q 044301           34 QRGICYLSRIPPH-MDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        34 k~GVIYlSrIPp~-M~p~klR~llsqfGeI~RIyL~   68 (154)
                      ..-+|||++||.. ++...|+++|++||+|.+|+|.
T Consensus        24 p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~   59 (112)
T 1x4f_A           24 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILM   59 (112)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEE
T ss_pred             CCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEe
Confidence            3569999999997 9999999999999999999995

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

Probab=97.81  E-value=2e-05  Score=53.38  Aligned_cols=37  Identities=16%  Similarity=0.407  Sum_probs=34.1

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|+|...
T Consensus        11 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~   47 (102)
T 2cqb_A           11 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLD   47 (102)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEec
Confidence            4568999999999999999999999999999999765

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.81  E-value=2.4e-05  Score=52.17  Aligned_cols=37  Identities=22%  Similarity=0.361  Sum_probs=34.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .+-.|||+.||+.++...|+++|++||.|..|.+...
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~   40 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKD   40 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeec
Confidence            3557999999999999999999999999999999865

>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=97.80  E-value=1.2e-05  Score=55.98  Aligned_cols=36  Identities=11%  Similarity=0.284  Sum_probs=33.5

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..|.|...
T Consensus        25 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   60 (115)
T 2cpz_A           25 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFID   60 (115)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEEC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC
Confidence            357999999999999999999999999999999775

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

Probab=97.80  E-value=1.4e-05  Score=54.08  Aligned_cols=38  Identities=16%  Similarity=0.281  Sum_probs=34.7

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|.+|+|...
T Consensus        15 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   52 (100)
T 2do4_A           15 LEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTN   52 (100)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEEC
Confidence            34568999999999999999999999999999999875

>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=97.80  E-value=2.4e-05  Score=52.75  Aligned_cols=38  Identities=13%  Similarity=0.326  Sum_probs=34.5

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|+|...
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   43 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPID   43 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEec
Confidence            34568999999999999999999999999999999765

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

Probab=97.79  E-value=1.1e-05  Score=57.29  Aligned_cols=36  Identities=14%  Similarity=0.307  Sum_probs=33.1

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      +-.|||+.||+.++...|+++|++||+|..|.|...
T Consensus         6 ~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d   41 (110)
T 3s8s_A            6 LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLH   41 (110)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEEC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEC
Confidence            346999999999999999999999999999999765

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.79  E-value=2.5e-05  Score=54.33  Aligned_cols=36  Identities=11%  Similarity=0.216  Sum_probs=33.4

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||+|..|+|...
T Consensus        27 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~   62 (116)
T 1x4b_A           27 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRD   62 (116)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEEC
Confidence            357999999999999999999999999999999765

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

Probab=97.79  E-value=2.4e-05  Score=55.03  Aligned_cols=37  Identities=14%  Similarity=0.311  Sum_probs=33.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.||++.||+.++...|+++|++||+|..|+|...
T Consensus        10 ~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d   46 (103)
T 1s79_A           10 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRT   46 (103)
T ss_dssp             GGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEEC
Confidence            3467999999999999999999999999999999764

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.78  E-value=2.9e-05  Score=54.05  Aligned_cols=37  Identities=16%  Similarity=0.398  Sum_probs=34.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||+|..|+|...
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   52 (116)
T 2cqd_A           16 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITD   52 (116)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEc
Confidence            4567999999999999999999999999999999865

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

Probab=97.77  E-value=2e-05  Score=53.53  Aligned_cols=36  Identities=17%  Similarity=0.517  Sum_probs=33.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      +--|||+.||+.++...|+++|++||.|..+++...
T Consensus         9 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   44 (102)
T 2xs2_A            9 PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD   44 (102)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEEC
Confidence            457999999999999999999999999999999775

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

Probab=97.77  E-value=2.7e-05  Score=52.60  Aligned_cols=38  Identities=13%  Similarity=0.414  Sum_probs=34.5

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||..++...|+++|++||.|..|+|...
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   45 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYD   45 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeC
Confidence            34567999999999999999999999999999999765

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=97.76  E-value=9.1e-06  Score=57.05  Aligned_cols=36  Identities=19%  Similarity=0.292  Sum_probs=33.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||..++...|+++|++||+|..|.+...
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   71 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCD   71 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEec
Confidence            468999999999999999999999999999999764

>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=97.76  E-value=3.4e-05  Score=53.07  Aligned_cols=37  Identities=22%  Similarity=0.405  Sum_probs=33.7

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|.+...
T Consensus        25 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   61 (110)
T 1oo0_B           25 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLD   61 (110)
T ss_dssp             TBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEec
Confidence            3457999999999999999999999999999999764

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=97.75  E-value=3.6e-05  Score=53.84  Aligned_cols=38  Identities=13%  Similarity=0.304  Sum_probs=33.2

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|++...
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~   60 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRD   60 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEEC
Confidence            44678999999999999999999999999999999765

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.74  E-value=2.6e-05  Score=52.13  Aligned_cols=36  Identities=17%  Similarity=0.349  Sum_probs=32.9

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceE-EeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRI-YLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RI-yL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..+ ++...
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~   41 (96)
T 1x5t_A            5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRD   41 (96)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEc
Confidence            4579999999999999999999999999999 88764

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

Probab=97.74  E-value=3.7e-05  Score=54.31  Aligned_cols=37  Identities=16%  Similarity=0.407  Sum_probs=34.4

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|.+|++...
T Consensus        62 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~   98 (140)
T 2ku7_A           62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLD   98 (140)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCC
T ss_pred             CCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeec
Confidence            4678999999999999999999999999999999765

>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=97.74  E-value=2.6e-05  Score=55.41  Aligned_cols=35  Identities=14%  Similarity=0.288  Sum_probs=32.7

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .-+|||++||..++...|+++|++||.|.+|++.+
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~   49 (104)
T 1wex_A           15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP   49 (104)
T ss_dssp             CSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEC
Confidence            35899999999999999999999999999999865

>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=97.74  E-value=3.3e-05  Score=52.90  Aligned_cols=37  Identities=11%  Similarity=0.345  Sum_probs=34.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||+|..|.|...
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   50 (111)
T 1x4h_A           14 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLH   50 (111)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEec
Confidence            3567999999999999999999999999999999865

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.74  E-value=2.6e-05  Score=52.53  Aligned_cols=38  Identities=13%  Similarity=0.269  Sum_probs=34.4

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccc-eEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQ-RIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~-RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|. .|.+...
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~   45 (99)
T 2div_A            7 GMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRN   45 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEEC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeec
Confidence            3456899999999999999999999999999 9998765

>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=97.72  E-value=1.2e-05  Score=53.39  Aligned_cols=34  Identities=15%  Similarity=0.362  Sum_probs=32.1

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -|||+.||+.++...|+++|++||+|.+|++...
T Consensus         3 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   36 (90)
T 2ki2_A            3 NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYD   36 (90)
T ss_dssp             EEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCC
T ss_pred             EEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEc
Confidence            4899999999999999999999999999999765

>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=97.71  E-value=4.2e-05  Score=54.55  Aligned_cols=36  Identities=11%  Similarity=0.296  Sum_probs=33.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||+|..|+|...
T Consensus         3 ~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   38 (167)
T 2cjk_A            3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKD   38 (167)
T ss_dssp             GGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCC
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEC
Confidence            357999999999999999999999999999999765

>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=97.71  E-value=1.9e-05  Score=54.61  Aligned_cols=38  Identities=21%  Similarity=0.454  Sum_probs=34.8

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..+--|||+.||+.++...|+++|++||+|..|+|...
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~   60 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD   60 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEEC
Confidence            34578999999999999999999999999999999775

>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=97.71  E-value=1.9e-05  Score=55.85  Aligned_cols=35  Identities=20%  Similarity=0.378  Sum_probs=32.7

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||+.++...|+++|++||.|..|.+.+.
T Consensus         3 ~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~   37 (167)
T 1fxl_A            3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRD   37 (167)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEC
T ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeC
Confidence            36999999999999999999999999999999875

>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=97.71  E-value=2.9e-05  Score=52.80  Aligned_cols=38  Identities=13%  Similarity=0.274  Sum_probs=34.5

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||..++...|+++|++||.|..|+|...
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   50 (103)
T 2cqg_A           13 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKD   50 (103)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEec
Confidence            34567999999999999999999999999999999765

>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=97.70  E-value=3.2e-05  Score=54.44  Aligned_cols=35  Identities=14%  Similarity=0.434  Sum_probs=32.5

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .-.|||+.||+.++...|+++|++||.|.+|+|.+
T Consensus        10 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~   44 (111)
T 1whx_A           10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE   44 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC
Confidence            35899999999999999999999999999999864

>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=97.70  E-value=5.6e-05  Score=53.56  Aligned_cols=39  Identities=15%  Similarity=0.384  Sum_probs=35.3

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      ..+-.|||+.||..++...|+++|++||.|..|.+....
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~   43 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR   43 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECST
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC
Confidence            446789999999999999999999999999999998753

>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=97.70  E-value=4.3e-05  Score=49.97  Aligned_cols=38  Identities=21%  Similarity=0.363  Sum_probs=34.7

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      .+-.|||+.||+.++...|+++|++||.|.++.|....
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~   40 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVER   40 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCC
Confidence            45679999999999999999999999999999998754

>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=97.69  E-value=3.7e-05  Score=50.29  Aligned_cols=36  Identities=22%  Similarity=0.376  Sum_probs=33.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|.+.+
T Consensus        11 ~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~   46 (85)
T 2ytc_A           11 TITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQ   46 (85)
T ss_dssp             SCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEG
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEEC
Confidence            345799999999999999999999999999999975

>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=97.69  E-value=2.1e-05  Score=57.46  Aligned_cols=37  Identities=14%  Similarity=0.230  Sum_probs=34.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|.|...
T Consensus        12 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~   48 (196)
T 1l3k_A           12 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRD   48 (196)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEc
Confidence            3568999999999999999999999999999999875

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus}

Probab=97.69  E-value=3.3e-05  Score=52.57  Aligned_cols=37  Identities=22%  Similarity=0.521  Sum_probs=33.4

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..+-.|||+.||..++...|+++|++||.|..++|..
T Consensus         9 ~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~   45 (89)
T 3d2w_A            9 HHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPK   45 (89)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEee
Confidence            3467899999999999999999999999999999976

>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=97.68  E-value=1.9e-05  Score=55.40  Aligned_cols=38  Identities=21%  Similarity=0.301  Sum_probs=34.7

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..+-.|||+.||+.++...|+++|++||.|..|.+...
T Consensus        24 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~   61 (108)
T 2jrs_A           24 AGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMD   61 (108)
T ss_dssp             SSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEc
Confidence            34668999999999999999999999999999999765

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

Probab=97.68  E-value=3.6e-05  Score=55.89  Aligned_cols=36  Identities=6%  Similarity=0.249  Sum_probs=33.7

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..-.|||+.||..++...|+++|++||+|..|+|.+
T Consensus        15 ~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~   50 (105)
T 1sjq_A           15 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK   50 (105)
T ss_dssp             CCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEc
Confidence            456899999999999999999999999999999975

>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=97.68  E-value=3.4e-05  Score=52.67  Aligned_cols=38  Identities=8%  Similarity=0.332  Sum_probs=34.9

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|+|...
T Consensus        27 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   64 (107)
T 3ulh_A           27 ETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD   64 (107)
T ss_dssp             CCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC
Confidence            45678999999999999999999999999999999865

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

Probab=97.67  E-value=2.8e-05  Score=57.63  Aligned_cols=36  Identities=19%  Similarity=0.330  Sum_probs=33.5

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..|+|...
T Consensus        28 ~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~   63 (216)
T 2qfj_A           28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWD   63 (216)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeec
Confidence            457999999999999999999999999999999765

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.67  E-value=3e-05  Score=52.64  Aligned_cols=37  Identities=11%  Similarity=0.187  Sum_probs=33.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhc-cCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQ-YGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsq-fGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++ ||.|..|+|...
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~   45 (104)
T 2dhg_A            8 PEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLD   45 (104)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEEC
Confidence            3467999999999999999999999 999999999765

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.67  E-value=3e-05  Score=53.45  Aligned_cols=36  Identities=14%  Similarity=0.266  Sum_probs=33.1

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..|.|...
T Consensus        15 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~   50 (114)
T 2do0_A           15 GSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILED   50 (114)
T ss_dssp             CSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC
Confidence            457999999999999999999999999999998764

>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=97.66  E-value=2.1e-05  Score=55.97  Aligned_cols=35  Identities=14%  Similarity=0.244  Sum_probs=32.9

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||+.++...|+++|++||.|..|++.+.
T Consensus         4 ~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~   38 (168)
T 1b7f_A            4 TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRD   38 (168)
T ss_dssp             SEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEE
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEe
Confidence            46999999999999999999999999999999875

>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=97.66  E-value=5.6e-05  Score=53.10  Aligned_cols=36  Identities=19%  Similarity=0.380  Sum_probs=33.4

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..|.|...
T Consensus        22 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   57 (126)
T 3ex7_B           22 GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLD   57 (126)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec
Confidence            348999999999999999999999999999999765

>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=97.66  E-value=5e-05  Score=53.47  Aligned_cols=36  Identities=17%  Similarity=0.334  Sum_probs=33.2

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .+-|||+.||+.++...|+++|++||.|..+.|...
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d   40 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD   40 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEE
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeec
Confidence            456999999999999999999999999999999764

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=97.66  E-value=5.2e-05  Score=53.45  Aligned_cols=37  Identities=5%  Similarity=0.266  Sum_probs=34.1

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||+|..|++...
T Consensus        34 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~   70 (124)
T 2kt5_A           34 TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD   70 (124)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEC
Confidence            3458999999999999999999999999999999775

>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=97.66  E-value=3.4e-05  Score=54.62  Aligned_cols=35  Identities=9%  Similarity=0.302  Sum_probs=32.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .-+|||+.||..++...|+++|++||+|..|.+.+
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~   49 (101)
T 2cq1_A           15 SRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLK   49 (101)
T ss_dssp             CSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEC
Confidence            45899999999999999999999999999998865

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.65  E-value=2.2e-05  Score=53.43  Aligned_cols=38  Identities=24%  Similarity=0.539  Sum_probs=34.6

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||+|..|+|...
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~   50 (103)
T 2cq0_A           13 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKD   50 (103)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeec
Confidence            34578999999999999999999999999999999765

>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=97.65  E-value=4.4e-05  Score=51.93  Aligned_cols=38  Identities=21%  Similarity=0.311  Sum_probs=34.9

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|.|...
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   50 (103)
T 2cqi_A           13 GQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITE   50 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECC
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEec
Confidence            34578999999999999999999999999999999875

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

Probab=97.65  E-value=4.3e-05  Score=50.93  Aligned_cols=36  Identities=8%  Similarity=0.218  Sum_probs=33.2

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|.+.
T Consensus         7 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~   42 (90)
T 2dnp_A            7 GNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVV   42 (90)
T ss_dssp             CCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEE
Confidence            445679999999999999999999999999999986

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

Probab=97.65  E-value=3.3e-05  Score=51.31  Aligned_cols=36  Identities=22%  Similarity=0.505  Sum_probs=33.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..--|||+.||+.++...|+++|++||+|..+++..
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~   39 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPK   39 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEec
Confidence            346799999999999999999999999999999864

>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=97.65  E-value=4.7e-05  Score=51.38  Aligned_cols=36  Identities=14%  Similarity=0.274  Sum_probs=32.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|.+..
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~   51 (97)
T 1why_A           16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK   51 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeC
Confidence            346799999999999999999999999999998864

>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=97.65  E-value=1.1e-05  Score=53.86  Aligned_cols=37  Identities=8%  Similarity=0.033  Sum_probs=32.3

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .+-.|||+.||+.++...|+++|++||.|..+.+...
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~   50 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKY   50 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEe
Confidence            3568999999999999999999999999987777653

>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=97.64  E-value=5e-05  Score=51.63  Aligned_cols=38  Identities=24%  Similarity=0.334  Sum_probs=34.9

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|+|...
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~   50 (103)
T 2cq3_A           13 STPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN   50 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec
Confidence            44678999999999999999999999999999999865

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=97.64  E-value=2.7e-05  Score=59.51  Aligned_cols=35  Identities=20%  Similarity=0.331  Sum_probs=32.8

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      --|||+.||+.++...|+++|++||+|..|.|...
T Consensus        16 ~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d   50 (213)
T 4f02_A           16 ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRD   50 (213)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecc
Confidence            46999999999999999999999999999999765

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

Probab=97.64  E-value=4.7e-05  Score=51.80  Aligned_cols=38  Identities=18%  Similarity=0.449  Sum_probs=34.7

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|+|...
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   50 (107)
T 2cph_A           13 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKK   50 (107)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecC
Confidence            44578999999999999999999999999999999765

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.64  E-value=4.7e-05  Score=50.76  Aligned_cols=35  Identities=14%  Similarity=0.367  Sum_probs=32.6

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      ..-.|||+.||+.++...|+++|++||+|..|++.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~   41 (90)
T 2dnq_A            7 GMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII   41 (90)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE
Confidence            35679999999999999999999999999999986

>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=97.63  E-value=3.2e-05  Score=56.55  Aligned_cols=38  Identities=13%  Similarity=0.330  Sum_probs=35.3

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||+|..|+|...
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   74 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLD   74 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec
Confidence            45689999999999999999999999999999999775

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=97.63  E-value=2.2e-05  Score=56.06  Aligned_cols=37  Identities=27%  Similarity=0.493  Sum_probs=34.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+.+|++||+|..|.+...
T Consensus        41 ~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~   77 (139)
T 1u6f_A           41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCD   77 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEc
Confidence            3468999999999999999999999999999999765

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

Probab=97.63  E-value=5e-05  Score=51.04  Aligned_cols=36  Identities=11%  Similarity=0.227  Sum_probs=33.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..|.|...
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   40 (98)
T 2cpf_A            5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKK   40 (98)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec
Confidence            457999999999999999999999999999999764

>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=97.62  E-value=5.2e-05  Score=55.95  Aligned_cols=35  Identities=6%  Similarity=0.258  Sum_probs=32.9

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .-+|||+.||+.++...|+++|++||+|.+|.|.+
T Consensus        31 s~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~   65 (119)
T 2ad9_A           31 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK   65 (119)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEG
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC
Confidence            45899999999999999999999999999999875

>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=97.61  E-value=6.2e-05  Score=51.49  Aligned_cols=37  Identities=8%  Similarity=0.170  Sum_probs=33.2

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCc-cceEEeccCC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGE-IQRIYLAPED   71 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGe-I~RIyL~pEd   71 (154)
                      .--|||+.||+.++...|+++|++||. |..+.+...+
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~   45 (109)
T 2dis_A            8 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASA   45 (109)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSS
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccC
Confidence            346999999999999999999999999 9999997544

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=97.61  E-value=5.4e-05  Score=54.25  Aligned_cols=37  Identities=14%  Similarity=0.255  Sum_probs=33.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccce--EEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQR--IYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~R--IyL~pE   70 (154)
                      ..--|||+.||+.++...|+++|++||.|..  |+|...
T Consensus        22 ~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d   60 (131)
T 2m2b_A           22 ANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKD   60 (131)
T ss_dssp             CCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEc
Confidence            3457999999999999999999999999977  898865

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

Probab=97.61  E-value=4.5e-05  Score=53.31  Aligned_cols=34  Identities=26%  Similarity=0.373  Sum_probs=30.8

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCc--cceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGE--IQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGe--I~RIyL~pE   70 (154)
                      -|||+.||+..+...|+++|++||.  |..|+|...
T Consensus        11 tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d   46 (95)
T 2lkz_A           11 TIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKD   46 (95)
T ss_dssp             EEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEec
Confidence            5999999999999999999999994  678988764

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=97.61  E-value=5.2e-05  Score=51.34  Aligned_cols=38  Identities=13%  Similarity=0.243  Sum_probs=34.1

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccce--------EEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQR--------IYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~R--------IyL~pE   70 (154)
                      .....|||+.||..++...|+++|++||.|..        |.+...
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~   56 (99)
T 2la6_A           11 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTD   56 (99)
T ss_dssp             CCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEec
Confidence            34678999999999999999999999999999        888654

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.61  E-value=5.7e-05  Score=50.51  Aligned_cols=36  Identities=17%  Similarity=0.280  Sum_probs=33.3

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|.+.
T Consensus         8 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~   43 (92)
T 2dgt_A            8 KASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV   43 (92)
T ss_dssp             CSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEE
Confidence            446789999999999999999999999999999986

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=97.61  E-value=6.3e-05  Score=49.85  Aligned_cols=36  Identities=8%  Similarity=0.128  Sum_probs=33.5

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|.+..
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~   42 (92)
T 2dgv_A            7 GACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKM   42 (92)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEc
Confidence            356799999999999999999999999999999986

>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=97.60  E-value=2.3e-05  Score=56.96  Aligned_cols=37  Identities=16%  Similarity=0.235  Sum_probs=34.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||+|..|.|...
T Consensus        45 ~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d   81 (129)
T 2kxn_B           45 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYD   81 (129)
T ss_dssp             CSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec
Confidence            3458999999999999999999999999999999765

>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=97.59  E-value=3.8e-05  Score=51.48  Aligned_cols=34  Identities=15%  Similarity=0.237  Sum_probs=31.3

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccC--ccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYG--EIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfG--eI~RIyL~pE   70 (154)
                      -|||+.||..++...|+++|++||  +|..+++...
T Consensus         3 ~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~   38 (90)
T 3p5t_L            3 ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFEN   38 (90)
T ss_dssp             -CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEec
Confidence            489999999999999999999999  9999999765

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=97.59  E-value=3.1e-05  Score=54.63  Aligned_cols=34  Identities=18%  Similarity=0.289  Sum_probs=32.1

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .|||+.||+.++...|+++|++||.|..|+|...
T Consensus         2 ~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~   35 (166)
T 3md3_A            2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMID   35 (166)
T ss_dssp             EEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECC
T ss_pred             EEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEEC
Confidence            4899999999999999999999999999999765

>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=97.59  E-value=5.4e-05  Score=51.25  Aligned_cols=36  Identities=19%  Similarity=0.653  Sum_probs=33.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..-.|||+.||+.++...|+++|++||+|..|++.+
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~   49 (99)
T 2cpj_A           14 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK   49 (99)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEec
Confidence            456899999999999999999999999999999863

>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=97.58  E-value=5.5e-05  Score=56.20  Aligned_cols=35  Identities=23%  Similarity=0.421  Sum_probs=32.8

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||+.++...|+.+|++||+|..|.|...
T Consensus        73 ~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~  107 (165)
T 1rk8_A           73 WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLD  107 (165)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEec
Confidence            36999999999999999999999999999999765

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.56  E-value=5.3e-05  Score=51.51  Aligned_cols=37  Identities=24%  Similarity=0.349  Sum_probs=34.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||+|..|.|...
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   50 (103)
T 2d9p_A           14 QVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME   50 (103)
T ss_dssp             SCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC
Confidence            4567999999999999999999999999999999865

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

Probab=97.55  E-value=7.7e-05  Score=50.53  Aligned_cols=34  Identities=18%  Similarity=0.293  Sum_probs=32.2

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      .-.|||+.||+.++...|+.+|++||.|..|.+.
T Consensus        27 ~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~   60 (101)
T 2la4_A           27 VTTAYIGNIPHFATEADLIPLFQNFGFILDFKHY   60 (101)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEE
T ss_pred             CCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEe
Confidence            4689999999999999999999999999999986

>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=97.55  E-value=3.8e-05  Score=53.61  Aligned_cols=38  Identities=8%  Similarity=0.392  Sum_probs=34.4

Q ss_pred             CCcceEEecCCCCCCCHHHHH---HHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLR---QILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR---~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+   ++|++||+|..|++...
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~   53 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNS   53 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECC
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecC
Confidence            345689999999999999999   99999999999999665

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

Probab=97.54  E-value=7.7e-05  Score=50.51  Aligned_cols=34  Identities=18%  Similarity=0.421  Sum_probs=31.9

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -|||+.||+.++...|+++|++||+|..|.+...
T Consensus         2 ~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   35 (101)
T 2hvz_A            2 KVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN   35 (101)
T ss_dssp             EEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC
Confidence            3899999999999999999999999999999765

>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=97.53  E-value=7.3e-05  Score=51.10  Aligned_cols=35  Identities=14%  Similarity=0.361  Sum_probs=32.3

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|++.
T Consensus        10 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~   44 (103)
T 2dgu_A           10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL   44 (103)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE
Confidence            34679999999999999999999999999999886

>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=97.53  E-value=9.1e-05  Score=51.90  Aligned_cols=37  Identities=11%  Similarity=0.125  Sum_probs=33.7

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCcc-ceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEI-QRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI-~RIyL~pE   70 (154)
                      ..-.|||+.||..++...|+++|++||.| ..|+|...
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d   51 (114)
T 2cpy_A           14 AKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVD   51 (114)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCC
T ss_pred             CccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEEC
Confidence            45679999999999999999999999999 89998765

>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=97.52  E-value=1.8e-05  Score=53.32  Aligned_cols=36  Identities=11%  Similarity=0.067  Sum_probs=31.6

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .+-.|||+.||+.++...|+++|++||.|..+.+..
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~   49 (98)
T 2cqp_A           14 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLK   49 (98)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEE
Confidence            456899999999999999999999999998665554

>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=97.52  E-value=7.8e-05  Score=51.43  Aligned_cols=38  Identities=26%  Similarity=0.433  Sum_probs=34.6

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+.+|++||.|..|.|.+.
T Consensus        23 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~   60 (109)
T 1x4g_A           23 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE   60 (109)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC
Confidence            45568999999999999999999999999999999764

>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=97.51  E-value=4.8e-05  Score=54.21  Aligned_cols=36  Identities=25%  Similarity=0.500  Sum_probs=33.9

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...|||+.||+.++...|+++|++||.|..+.+...
T Consensus        87 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~  122 (167)
T 2cjk_A           87 TGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLD  122 (167)
T ss_dssp             CEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCS
T ss_pred             CCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEc
Confidence            568999999999999999999999999999999775

>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens}

Probab=97.49  E-value=8.2e-05  Score=48.80  Aligned_cols=33  Identities=15%  Similarity=0.334  Sum_probs=30.4

Q ss_pred             eEEecCCCCCC------CHHHHHHHHhccCccceEEecc
Q 044301           37 ICYLSRIPPHM------DPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        37 VIYlSrIPp~M------~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .|||+.||+.+      +...|+++|++||.|..|++.+
T Consensus         3 ~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~   41 (81)
T 2krb_A            3 VIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPE   41 (81)
T ss_dssp             EEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCC
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecC
Confidence            69999999999      6799999999999999999873

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=97.49  E-value=2.7e-05  Score=53.57  Aligned_cols=35  Identities=11%  Similarity=0.181  Sum_probs=32.6

Q ss_pred             ceEEecCCCC------CCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPP------HMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp------~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||.      .++...|+++|++||.|..|+|...
T Consensus         7 ~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d   47 (100)
T 3ns6_A            7 QYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPID   47 (100)
T ss_dssp             GEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEE
T ss_pred             cEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEc
Confidence            4799999999      9999999999999999999999765

>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=97.48  E-value=0.00011  Score=50.89  Aligned_cols=35  Identities=23%  Similarity=0.542  Sum_probs=32.7

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .-.|||+.||+.++...|+++|++||.|..|++..
T Consensus         8 ~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~   42 (115)
T 3lqv_A            8 NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGN   42 (115)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEee
Confidence            45899999999999999999999999999999974

>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=97.48  E-value=7.3e-05  Score=53.50  Aligned_cols=36  Identities=11%  Similarity=0.439  Sum_probs=33.9

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..+++...
T Consensus        94 ~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~  129 (172)
T 2g4b_A           94 AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKD  129 (172)
T ss_dssp             TTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEEC
T ss_pred             CCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEec
Confidence            578999999999999999999999999999999765

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.47  E-value=0.00011  Score=50.62  Aligned_cols=38  Identities=13%  Similarity=0.238  Sum_probs=33.8

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccc--------eEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQ--------RIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~--------RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|.        +|+|...
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~   58 (113)
T 2cpe_A           13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLD   58 (113)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBC
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEe
Confidence            3456899999999999999999999999998        7888764

>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=97.47  E-value=6.5e-05  Score=54.87  Aligned_cols=37  Identities=22%  Similarity=0.387  Sum_probs=34.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|..|.+...
T Consensus       103 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~  139 (196)
T 1l3k_A          103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTD  139 (196)
T ss_dssp             CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEEC
T ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeec
Confidence            3468999999999999999999999999999999875

>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=97.46  E-value=9.3e-05  Score=52.76  Aligned_cols=37  Identities=14%  Similarity=0.309  Sum_probs=34.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ....|||+.||+.++...|+++|++||.|.++.+.+.
T Consensus        94 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~  130 (175)
T 3nmr_A           94 EDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRG  130 (175)
T ss_dssp             GGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEEC
Confidence            4568999999999999999999999999999999765

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

Probab=97.46  E-value=0.00013  Score=53.19  Aligned_cols=36  Identities=17%  Similarity=0.454  Sum_probs=33.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||.|..|.|...
T Consensus        47 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~   82 (135)
T 2lea_A           47 MTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRD   82 (135)
T ss_dssp             CCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEec
Confidence            457999999999999999999999999999999764

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

Probab=97.45  E-value=0.00012  Score=49.64  Aligned_cols=35  Identities=23%  Similarity=0.489  Sum_probs=32.1

Q ss_pred             CCcceEEecCCCC-CCCHHHHHHHHhccCccceEEe
Q 044301           33 DQRGICYLSRIPP-HMDPVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        33 ~k~GVIYlSrIPp-~M~p~klR~llsqfGeI~RIyL   67 (154)
                      ...-.|||+.||+ .++...|+++|++||.|..|.+
T Consensus         8 ~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i   43 (96)
T 2kvi_A            8 PPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI   43 (96)
T ss_dssp             -CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEE
Confidence            4456899999998 9999999999999999999999

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

Probab=97.45  E-value=0.00018  Score=53.21  Aligned_cols=39  Identities=15%  Similarity=0.369  Sum_probs=35.9

Q ss_pred             cCCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           32 ADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        32 ~~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ....-.|||+.||..++...|+++|++||.|.+|++...
T Consensus       122 ~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~  160 (216)
T 2qfj_A          122 ARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARD  160 (216)
T ss_dssp             HTTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEEC
T ss_pred             cCCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEec
Confidence            356789999999999999999999999999999999875

>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=97.45  E-value=0.00013  Score=49.77  Aligned_cols=36  Identities=14%  Similarity=0.306  Sum_probs=33.1

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .+-.|||+.||+.++...|+++|++|| |..|+|...
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~   49 (104)
T 1wi8_A           14 PPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPRE   49 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecC
Confidence            456899999999999999999999999 999999765

>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=97.44  E-value=0.00013  Score=50.49  Aligned_cols=35  Identities=14%  Similarity=0.191  Sum_probs=32.4

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .--|||+.||..++...|+++|++||+|..|.|..
T Consensus        15 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~   49 (108)
T 1x4c_A           15 ENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR   49 (108)
T ss_dssp             CCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEec
Confidence            45799999999999999999999999999999865

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

Probab=97.44  E-value=0.00016  Score=48.63  Aligned_cols=32  Identities=16%  Similarity=0.399  Sum_probs=29.7

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceE
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRI   65 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RI   65 (154)
                      ..--|||+.||+.++...|+.+|++||.|.+|
T Consensus         7 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v   38 (94)
T 2e5g_A            7 GLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV   38 (94)
T ss_dssp             TCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE
Confidence            34579999999999999999999999999988

>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=97.44  E-value=7.5e-05  Score=53.09  Aligned_cols=38  Identities=18%  Similarity=0.417  Sum_probs=34.6

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      ..-.|||+.||+.++...|+++|++||.|..+.+.+..
T Consensus        88 ~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~  125 (168)
T 1b7f_A           88 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDK  125 (168)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECT
T ss_pred             CCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcC
Confidence            45689999999999999999999999999999997753

>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=97.44  E-value=0.00016  Score=49.96  Aligned_cols=32  Identities=13%  Similarity=0.378  Sum_probs=31.0

Q ss_pred             ceEEecCCCCC-CCHHHHHHHHhccCccceEEe
Q 044301           36 GICYLSRIPPH-MDPVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        36 GVIYlSrIPp~-M~p~klR~llsqfGeI~RIyL   67 (154)
                      -.|||+.||+. ++...|+++|++||.|..|.+
T Consensus        28 ~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i   60 (110)
T 1wf1_A           28 SRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV   60 (110)
T ss_dssp             SEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE
T ss_pred             cEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE
Confidence            58999999999 999999999999999999999

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=97.43  E-value=7.9e-05  Score=52.53  Aligned_cols=37  Identities=8%  Similarity=0.076  Sum_probs=34.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++||.|.++++...
T Consensus        86 ~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~  122 (166)
T 3md3_A           86 DTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWD  122 (166)
T ss_dssp             TCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEEC
T ss_pred             CCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEec
Confidence            3568999999999999999999999999999999875

>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=97.43  E-value=0.00014  Score=49.85  Aligned_cols=35  Identities=23%  Similarity=0.492  Sum_probs=32.6

Q ss_pred             CCcceEEecCCCC-CCCHHHHHHHHhccCccceEEe
Q 044301           33 DQRGICYLSRIPP-HMDPVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        33 ~k~GVIYlSrIPp-~M~p~klR~llsqfGeI~RIyL   67 (154)
                      ...-.|||+.||+ .++...|+++|++||.|..|.+
T Consensus        20 ~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i   55 (97)
T 2xnq_A           20 HMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI   55 (97)
T ss_dssp             CTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEE
Confidence            4467899999998 9999999999999999999999

>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=97.42  E-value=8.9e-05  Score=52.30  Aligned_cols=37  Identities=30%  Similarity=0.485  Sum_probs=34.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ....|||+.||+.++...|+++|++||.|..+++...
T Consensus        87 ~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~  123 (167)
T 1fxl_A           87 RDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVD  123 (167)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEec
Confidence            3467999999999999999999999999999999765

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

Probab=97.41  E-value=0.00014  Score=50.75  Aligned_cols=38  Identities=26%  Similarity=0.357  Sum_probs=34.9

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||+|..|.+...
T Consensus        27 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~   64 (109)
T 2err_A           27 SQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN   64 (109)
T ss_dssp             TCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCB
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEEC
Confidence            45678999999999999999999999999999999764

>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=97.40  E-value=0.00011  Score=57.48  Aligned_cols=34  Identities=18%  Similarity=0.136  Sum_probs=31.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      .=.|||++||..++...|+++|++||+|.+|++.
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~   79 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITF   79 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEE
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEE
Confidence            3458999999999999999999999999999994

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens}

Probab=97.38  E-value=0.00015  Score=50.15  Aligned_cols=34  Identities=15%  Similarity=0.330  Sum_probs=31.4

Q ss_pred             cceEEecCCCCCC------CHHHHHHHHhccCccceEEec
Q 044301           35 RGICYLSRIPPHM------DPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        35 ~GVIYlSrIPp~M------~p~klR~llsqfGeI~RIyL~   68 (154)
                      .-.|||+.||..+      +...|+++|++||.|..|++.
T Consensus        15 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~   54 (105)
T 2nlw_A           15 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYP   54 (105)
T ss_dssp             CSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECC
T ss_pred             CCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEee
Confidence            4589999999999      679999999999999999987

>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=97.38  E-value=0.0001  Score=50.43  Aligned_cols=37  Identities=14%  Similarity=0.302  Sum_probs=32.1

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||..++...|+++|++|| |..|.+...
T Consensus        17 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~   53 (100)
T 2j76_E           17 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPRE   53 (100)
T ss_dssp             ---CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEec
Confidence            3456899999999999999999999999 999999765

>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=97.38  E-value=0.00011  Score=53.31  Aligned_cols=38  Identities=13%  Similarity=0.349  Sum_probs=34.6

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||+|..|++...
T Consensus        71 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~  108 (150)
T 2i2y_A           71 PLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN  108 (150)
T ss_dssp             TTSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeC
Confidence            34678999999999999999999999999999999764

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

Probab=97.37  E-value=0.00018  Score=50.35  Aligned_cols=35  Identities=11%  Similarity=0.409  Sum_probs=30.8

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .--|||+.||+.++...|+++|++||+|. +.+...
T Consensus         8 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~   42 (114)
T 2dnl_A            8 SRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHK   42 (114)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTS
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeec
Confidence            45699999999999999999999999999 766543

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

Probab=97.37  E-value=0.0002  Score=50.22  Aligned_cols=37  Identities=11%  Similarity=0.331  Sum_probs=34.3

Q ss_pred             cCCcceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           32 ADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        32 ~~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      ....-.|||+.||+.++...|+.+|++||.|..|.+.
T Consensus        28 ~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~   64 (108)
T 2jvo_A           28 ELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL   64 (108)
T ss_dssp             CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE
Confidence            4567799999999999999999999999999999987

>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=97.36  E-value=0.00019  Score=47.92  Aligned_cols=35  Identities=20%  Similarity=0.478  Sum_probs=32.4

Q ss_pred             CcceEEecCCCCCCCHHHHH----HHHhccCccceEEec
Q 044301           34 QRGICYLSRIPPHMDPVKLR----QILSQYGEIQRIYLA   68 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR----~llsqfGeI~RIyL~   68 (154)
                      ..-.|||+.||+.++...|+    ++|++||.|..|++.
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~   45 (97)
T 1nu4_A            7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVS   45 (97)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEE
Confidence            34689999999999999999    999999999999986

>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=97.36  E-value=0.00016  Score=51.53  Aligned_cols=35  Identities=20%  Similarity=0.457  Sum_probs=32.8

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      --|||+.||+.++...|+++|++||+|..|++...
T Consensus         4 ~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~   38 (175)
T 3nmr_A            4 IKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRD   38 (175)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEec
Confidence            46999999999999999999999999999999765

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=97.35  E-value=0.00015  Score=52.25  Aligned_cols=36  Identities=11%  Similarity=0.086  Sum_probs=32.7

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccC-ccceEEec
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYG-EIQRIYLA   68 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfG-eI~RIyL~   68 (154)
                      ...--|||+.||..++...|+++|++|| +|..+.+.
T Consensus        26 ~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~   62 (111)
T 2jvr_A           26 AKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVN   62 (111)
T ss_dssp             CCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECS
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEE
Confidence            4455899999999999999999999999 99999884

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=97.32  E-value=0.00021  Score=52.26  Aligned_cols=38  Identities=13%  Similarity=0.459  Sum_probs=34.9

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+.++...|+++|++||.|..|++...
T Consensus       112 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~  149 (198)
T 2yh0_A          112 DSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKD  149 (198)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeec
Confidence            34579999999999999999999999999999999765

>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=97.32  E-value=0.00021  Score=49.21  Aligned_cols=38  Identities=16%  Similarity=0.225  Sum_probs=33.4

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccce-EEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQR-IYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~R-IyL~pE   70 (154)
                      ...-.|||+.||...+...|+++|++||.|.. |.|...
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~   51 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVD   51 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEEC
Confidence            34678999999999999999999999999987 877654

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

Probab=97.31  E-value=0.00029  Score=53.83  Aligned_cols=36  Identities=6%  Similarity=0.274  Sum_probs=33.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||+|..|+|...
T Consensus        88 ~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d  123 (177)
T 2f3j_A           88 GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD  123 (177)
T ss_dssp             CEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC
Confidence            458999999999999999999999999999999765

>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=97.30  E-value=0.00015  Score=56.96  Aligned_cols=40  Identities=13%  Similarity=0.259  Sum_probs=33.5

Q ss_pred             hcCCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           31 KADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        31 k~~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .......|||+.||+.++...|+++|++||+|..|+|.+.
T Consensus        37 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   76 (292)
T 2ghp_A           37 RNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADS   76 (292)
T ss_dssp             -----CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC
Confidence            3456789999999999999999999999999999999774

>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=97.30  E-value=0.00015  Score=48.33  Aligned_cols=34  Identities=18%  Similarity=0.289  Sum_probs=30.5

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCc-cceEEe
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGE-IQRIYL   67 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGe-I~RIyL   67 (154)
                      ..--|||+.||+.++...|+++|++||. |..+.+
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~   41 (93)
T 2cqh_A            7 GMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVL   41 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEE
Confidence            3457999999999999999999999999 777777

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.29  E-value=0.00028  Score=47.72  Aligned_cols=35  Identities=11%  Similarity=0.215  Sum_probs=31.3

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhcc--CccceEEec
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQY--GEIQRIYLA   68 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqf--GeI~RIyL~   68 (154)
                      ..-.|||+.||+.++...|+++|++|  |.|.+|.+.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~   50 (99)
T 2cpd_A           14 SVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI   50 (99)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC
T ss_pred             CcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe
Confidence            45689999999999999999999999  889888753

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=97.28  E-value=0.00019  Score=48.87  Aligned_cols=36  Identities=14%  Similarity=0.266  Sum_probs=33.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+.++...|+++|++|| |..|++...
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~   49 (103)
T 2dng_A           14 PPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRD   49 (103)
T ss_dssp             SCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEEC
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeec
Confidence            456899999999999999999999997 999999865

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

Probab=97.27  E-value=0.00018  Score=54.05  Aligned_cols=36  Identities=17%  Similarity=0.324  Sum_probs=33.0

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccC--ccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYG--EIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfG--eI~RIyL~pE   70 (154)
                      .--|||+.||..++...|+++|++||  +|..|+|...
T Consensus        55 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d   92 (156)
T 3n9u_C           55 RAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAEN   92 (156)
T ss_dssp             -CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEec
Confidence            45899999999999999999999999  9999999765

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=97.20  E-value=0.00028  Score=51.81  Aligned_cols=34  Identities=24%  Similarity=0.419  Sum_probs=30.2

Q ss_pred             cceEEecCCCCCCCHHHHH----HHHhccCccceEEec
Q 044301           35 RGICYLSRIPPHMDPVKLR----QILSQYGEIQRIYLA   68 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR----~llsqfGeI~RIyL~   68 (154)
                      .-.|||+.||+.++...|+    ++|++||+|..|++.
T Consensus        29 ~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~   66 (127)
T 2a3j_A           29 SQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVD   66 (127)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEec
Confidence            3579999999999998866    799999999999884

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

Probab=96.28  E-value=5.3e-05  Score=52.81  Aligned_cols=37  Identities=14%  Similarity=0.245  Sum_probs=32.4

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccce--------EEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQR--------IYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~R--------IyL~pE   70 (154)
                      ..-.|||+.||..++...|+++|++||.|..        |+|...
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~   50 (116)
T 2lcw_A            6 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTD   50 (116)
Confidence            3567999999999999999999999999988        776654

>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=97.18  E-value=0.00026  Score=48.98  Aligned_cols=38  Identities=11%  Similarity=-0.022  Sum_probs=34.0

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCc---cceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGE---IQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGe---I~RIyL~pE   70 (154)
                      ...-.|||+.||...+...|+++|++||.   |..|+|...
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~   49 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLN   49 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEEC
Confidence            34678999999999999999999999998   889999754

>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=97.14  E-value=0.00026  Score=49.88  Aligned_cols=35  Identities=14%  Similarity=0.191  Sum_probs=31.8

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .--|||+.||..++...|+++|++||+|..|.|..
T Consensus        16 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~   50 (115)
T 3beg_B           16 ENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYR   50 (115)
T ss_dssp             -CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECT
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEec
Confidence            45799999999999999999999999999999854

>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=97.10  E-value=0.00033  Score=55.51  Aligned_cols=36  Identities=17%  Similarity=0.226  Sum_probs=32.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccC--ccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYG--EIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfG--eI~RIyL~pE   70 (154)
                      +--|||+.||..++...|+++|++||  +|.+|.|...
T Consensus        68 ~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d  105 (229)
T 3q2s_C           68 RIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFEN  105 (229)
T ss_dssp             -CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEEC
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEec
Confidence            34599999999999999999999999  9999999764

>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=97.10  E-value=0.00036  Score=53.84  Aligned_cols=37  Identities=14%  Similarity=0.311  Sum_probs=33.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ....||++.||+..+...|+++|++||.|..|++...
T Consensus       108 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~  144 (193)
T 2voo_A          108 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRT  144 (193)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEEC
T ss_pred             ccCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEEC
Confidence            3567999999999999999999999999999998763

>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=97.09  E-value=0.00046  Score=53.46  Aligned_cols=34  Identities=9%  Similarity=0.319  Sum_probs=31.8

Q ss_pred             ceEEecCCC-CCCCHHHHHHHHhccCccceEEecc
Q 044301           36 GICYLSRIP-PHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        36 GVIYlSrIP-p~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      -+||++.|| ..++...|+.+|++||+|.+|.+..
T Consensus         5 ~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~   39 (205)
T 3tyt_A            5 PVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMK   39 (205)
T ss_dssp             SEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECT
T ss_pred             CEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEec
Confidence            489999999 6999999999999999999999965

>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=97.09  E-value=0.00028  Score=49.09  Aligned_cols=37  Identities=8%  Similarity=0.137  Sum_probs=32.6

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||..++...|+++|++||.| +|+|...
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~~-~v~i~~d   49 (102)
T 1wez_A           13 TTGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIG   49 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCce-EEEEEEC
Confidence            345689999999999999999999999965 9998764

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=97.09  E-value=0.00051  Score=50.77  Aligned_cols=35  Identities=23%  Similarity=0.516  Sum_probs=32.7

Q ss_pred             ceEEecCCCC-CCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPP-HMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp-~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||+ .++...|+++|++||.|..|.+...
T Consensus         4 ~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~   39 (198)
T 1qm9_A            4 SVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFN   39 (198)
T ss_dssp             CEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTT
T ss_pred             cEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeC
Confidence            4799999999 9999999999999999999999764

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=97.08  E-value=0.00044  Score=51.17  Aligned_cols=32  Identities=16%  Similarity=0.156  Sum_probs=30.0

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      .|||+.||..++...|+++|++||+|.+|.+.
T Consensus        27 ~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~   58 (124)
T 2e5i_A           27 LLSIQNPLYPITVDVLYTVCNPVGKVQRIVIF   58 (124)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTTSCEEEEEEE
T ss_pred             EEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEE
Confidence            37899999999999999999999999999984

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.08  E-value=0.00073  Score=49.44  Aligned_cols=39  Identities=13%  Similarity=0.168  Sum_probs=34.4

Q ss_pred             cCCcceEEecCCCCCCCHHHHHHHHhccCcc----ceEEeccC
Q 044301           32 ADQRGICYLSRIPPHMDPVKLRQILSQYGEI----QRIYLAPE   70 (154)
Q Consensus        32 ~~k~GVIYlSrIPp~M~p~klR~llsqfGeI----~RIyL~pE   70 (154)
                      ......|||+.||...+...|+++|++||.|    ..|+|...
T Consensus        20 ~~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d   62 (123)
T 2dha_A           20 KENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTY   62 (123)
T ss_dssp             CCSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEEC
Confidence            3567899999999999999999999999975    68998764

>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=97.06  E-value=0.00011  Score=52.09  Aligned_cols=34  Identities=9%  Similarity=0.173  Sum_probs=30.0

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEE
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIY   66 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIy   66 (154)
                      ...-.|||+.||..++...|+.+|++||.|..+.
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~   56 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSI   56 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceE
Confidence            3457899999999999999999999999997633

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=97.06  E-value=0.00037  Score=49.43  Aligned_cols=37  Identities=11%  Similarity=0.091  Sum_probs=33.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCc---cceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGE---IQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGe---I~RIyL~pE   70 (154)
                      ..-.|||+.||..++...|+++|++||.   |..|+|...
T Consensus        16 ~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~   55 (118)
T 2db1_A           16 EGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYT   55 (118)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEEC
Confidence            3457999999999999999999999999   889998764

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=97.05  E-value=0.00049  Score=49.54  Aligned_cols=35  Identities=17%  Similarity=0.172  Sum_probs=33.2

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .+-||++.|++.++...|+.||++||+|..++|..
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~   41 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL   41 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC
Confidence            57899999999999999999999999999999965

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.04  E-value=0.00045  Score=46.68  Aligned_cols=29  Identities=14%  Similarity=0.133  Sum_probs=26.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCcc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEI   62 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI   62 (154)
                      ..-.|||+.||+.++...|+++|++||.|
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~v   42 (101)
T 2fc9_A           14 ESKTLVLSNLSYSATEETLQEVFEKATFI   42 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHCSSCSEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCEE
Confidence            45689999999999999999999999988

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.01  E-value=0.00059  Score=45.25  Aligned_cols=37  Identities=11%  Similarity=0.094  Sum_probs=33.7

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||..++...|+++|++| .|..|+|...
T Consensus         8 ~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~   44 (91)
T 2dgw_A            8 TTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRN   44 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEEC
T ss_pred             CCccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEEC
Confidence            346789999999999999999999999 9999999765

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.99  E-value=0.00046  Score=46.56  Aligned_cols=30  Identities=17%  Similarity=0.379  Sum_probs=27.8

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQ   63 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~   63 (154)
                      ..-.|||+.||+.++...|+++|++||.|.
T Consensus        18 ~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~   47 (97)
T 2e5j_A           18 LAADVYVGNLPRDARVSDLKRALRELGSVP   47 (97)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHHTTCCC
T ss_pred             CCCEEEEeCCCCcCcHHHHHHHHHhcCCEE
Confidence            456899999999999999999999999995

>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=96.98  E-value=0.0013  Score=57.03  Aligned_cols=35  Identities=26%  Similarity=0.422  Sum_probs=32.9

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||+.++...|+++|++||.|..|.|...
T Consensus       103 ~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d  137 (437)
T 3pgw_S          103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYS  137 (437)
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeecc
Confidence            58999999999999999999999999999999754

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=96.98  E-value=0.00061  Score=51.22  Aligned_cols=34  Identities=18%  Similarity=0.157  Sum_probs=31.3

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      =-|||++||..++...|+++|++||+|.+|++..
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~   62 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFT   62 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEE
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEc
Confidence            4578999999999999999999999999999864

>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=96.96  E-value=0.00049  Score=53.74  Aligned_cols=37  Identities=14%  Similarity=0.534  Sum_probs=33.7

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ....|||+.||+.++...|+++|++||.|..+++...
T Consensus        94 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~  130 (284)
T 3smz_A           94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYS  130 (284)
T ss_dssp             CSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEee
Confidence            3568999999999999999999999999999998654

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=96.94  E-value=0.00068  Score=50.74  Aligned_cols=37  Identities=19%  Similarity=0.082  Sum_probs=33.6

Q ss_pred             CcceEEecCCCCC-CCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPH-MDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~-M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      +--||||+.||.. .+...|+.+|++||+|.-|-++.-
T Consensus        17 ~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g   54 (121)
T 1owx_A           17 IGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG   54 (121)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTT
T ss_pred             CCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecC
Confidence            3458999999999 999999999999999999998775

>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=96.92  E-value=0.00099  Score=43.40  Aligned_cols=35  Identities=11%  Similarity=0.245  Sum_probs=31.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhcc----C-------ccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQY----G-------EIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqf----G-------eI~RIyL~p   69 (154)
                      .--|||+.||+.++...|+++|++|    |       .|..+++..
T Consensus         6 ~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~   51 (87)
T 2hzc_A            6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ   51 (87)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecC
Confidence            4569999999999999999999999    8       888888763

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=96.88  E-value=0.0012  Score=48.64  Aligned_cols=36  Identities=22%  Similarity=0.377  Sum_probs=33.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccC-ccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYG-EIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfG-eI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++|| .|..|.+.+.
T Consensus       120 ~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~  156 (198)
T 1qm9_A          120 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK  156 (198)
T ss_dssp             CCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESST
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeC
Confidence            56799999999999999999999999 9999999774

>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=96.88  E-value=0.0009  Score=51.50  Aligned_cols=37  Identities=22%  Similarity=0.482  Sum_probs=33.9

Q ss_pred             CcceEEecCCCC-CCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPP-HMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp-~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..-.|||+.||+ .++...|+++|++||.|..|.|...
T Consensus        33 ~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~   70 (229)
T 2adc_A           33 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFN   70 (229)
T ss_dssp             CCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCT
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEEC
Confidence            345899999999 9999999999999999999999864

>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=96.87  E-value=0.0012  Score=49.35  Aligned_cols=37  Identities=8%  Similarity=0.082  Sum_probs=32.3

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||...+...|+++|++|| |..|+|...
T Consensus        44 ~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d   80 (139)
T 2hgn_A           44 TTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIG   80 (139)
T ss_dssp             -CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEEC
Confidence            3456899999999999999999999999 669998764

>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=96.80  E-value=0.00073  Score=50.22  Aligned_cols=37  Identities=11%  Similarity=0.053  Sum_probs=33.4

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCc---cceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGE---IQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGe---I~RIyL~pE   70 (154)
                      ..-.|||+.||...+...|+++|++||.   |..|+|...
T Consensus        43 ~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d   82 (136)
T 2hgl_A           43 EGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYT   82 (136)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEEC
Confidence            3457999999999999999999999999   889999764

>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=96.80  E-value=0.00031  Score=48.41  Aligned_cols=33  Identities=15%  Similarity=0.343  Sum_probs=29.0

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEE
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIY   66 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIy   66 (154)
                      ..-.|||+.||+.++...|+++|++||.|..+.
T Consensus        24 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~   56 (115)
T 2cpx_A           24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPP   56 (115)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCccceE
Confidence            346899999999999999999999999996443

>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=96.79  E-value=0.00082  Score=52.05  Aligned_cols=35  Identities=9%  Similarity=0.115  Sum_probs=32.4

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCcc--ceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEI--QRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI--~RIyL~pE   70 (154)
                      -.|||+.||+.++...|+++|++||.|  .++.+.+.
T Consensus       124 ~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~  160 (205)
T 3tyt_A          124 NVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSG  160 (205)
T ss_dssp             SEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSC
T ss_pred             ceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcC
Confidence            379999999999999999999999999  89988765

>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=96.76  E-value=0.0013  Score=51.35  Aligned_cols=35  Identities=20%  Similarity=0.503  Sum_probs=32.6

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -+|||+.||+.++...|+++|++||.|.+|.|.+.
T Consensus       208 ~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~  242 (282)
T 3pgw_A          208 HILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPG  242 (282)
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecC
Confidence            46999999999999999999999999999999853

>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=96.75  E-value=0.00089  Score=49.23  Aligned_cols=36  Identities=11%  Similarity=0.237  Sum_probs=32.5

Q ss_pred             CcceEEe--cCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYL--SRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYl--SrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..-.||+  +.||..++...|+++|++||+|.+|++.+
T Consensus        24 pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~   61 (114)
T 2cq2_A           24 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP   61 (114)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT
T ss_pred             CCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeC
Confidence            3567999  88999999999999999999999999853

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=96.74  E-value=0.00073  Score=45.07  Aligned_cols=32  Identities=9%  Similarity=0.150  Sum_probs=29.3

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceE
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRI   65 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RI   65 (154)
                      ..-.|||+.||+.++...|+++|++||.|..+
T Consensus        15 ~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~   46 (96)
T 1fjc_A           15 AARTLLAKNLSFNITEDELKEVFEDALEIRLV   46 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSEEEECCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe
Confidence            45689999999999999999999999998776

>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=96.71  E-value=0.0012  Score=51.92  Aligned_cols=37  Identities=16%  Similarity=0.339  Sum_probs=34.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ....|||+.||+.++...|+++|++||.|.+|.+...
T Consensus        95 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~  131 (261)
T 3sde_A           95 HGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD  131 (261)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEE
T ss_pred             cCCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeC
Confidence            3568999999999999999999999999999999875

>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=96.70  E-value=0.0011  Score=47.62  Aligned_cols=32  Identities=16%  Similarity=0.338  Sum_probs=29.1

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceE
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRI   65 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RI   65 (154)
                      ..-.|||+.||+.++...|+.+|++||.|..+
T Consensus        44 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~   75 (143)
T 3egn_A           44 PNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSE   75 (143)
T ss_dssp             CCSEEEEEEECTTCCHHHHHHHHGGGCCTTCH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcccc
Confidence            34579999999999999999999999999874

>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=96.69  E-value=0.0012  Score=43.86  Aligned_cols=32  Identities=13%  Similarity=0.391  Sum_probs=30.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEe
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL   67 (154)
                      .--|||+.||+.++...|+++|++| +|..+++
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i   36 (88)
T 1wg1_A            5 SSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYV   36 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEE
Confidence            4579999999999999999999999 9999999

>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=96.68  E-value=0.0014  Score=51.42  Aligned_cols=37  Identities=16%  Similarity=0.533  Sum_probs=33.2

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ...-.|||+.||+.++...|+.+|++||.|..|++.+
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~   56 (261)
T 3sde_A           20 TQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINR   56 (261)
T ss_dssp             CGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEET
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeC
Confidence            3445899999999999999999999999999999953

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=96.64  E-value=0.00071  Score=45.68  Aligned_cols=31  Identities=10%  Similarity=0.128  Sum_probs=28.6

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccce
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQR   64 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~R   64 (154)
                      ..-.|||+.||+.++...|+++|++||.|..
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~   46 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKND   46 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcce
Confidence            3558999999999999999999999999877

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.64  E-value=0.0023  Score=45.63  Aligned_cols=34  Identities=9%  Similarity=0.126  Sum_probs=31.7

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||...+...|+++|++| .|.+|+|...
T Consensus        17 ~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d   50 (109)
T 2dnn_A           17 LYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKD   50 (109)
T ss_dssp             HEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEEC
Confidence            489999999999999999999999 8999999764

>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=96.64  E-value=0.0015  Score=51.18  Aligned_cols=37  Identities=16%  Similarity=0.317  Sum_probs=33.3

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccC-ccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYG-EIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfG-eI~RIyL~pE   70 (154)
                      ....|||+.||+.++...|+++|++|| .|..|++...
T Consensus       116 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~  153 (292)
T 2ghp_A          116 TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSL  153 (292)
T ss_dssp             CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC--
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeC
Confidence            567899999999999999999999999 9999999764

>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=96.61  E-value=0.0027  Score=49.50  Aligned_cols=42  Identities=14%  Similarity=0.324  Sum_probs=35.1

Q ss_pred             HHHHHhhcCCcceEEecCCCCCCCHHHHHHHHhccCccceEEe
Q 044301           25 LLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        25 l~k~~~k~~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL   67 (154)
                      +..........-.|||+.||+.++...|+++|++|| |..+.+
T Consensus        12 ~~~~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~   53 (284)
T 3smz_A           12 LEHTERQFRNRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFV   53 (284)
T ss_dssp             HHHHHHHHHCCCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEE
T ss_pred             HhhhhccCCCCCEEEEeCCCCCCCHHHHHHHHHHcC-CEEEEE
Confidence            333344445677999999999999999999999999 999888

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=96.58  E-value=0.002  Score=49.02  Aligned_cols=37  Identities=16%  Similarity=0.300  Sum_probs=33.8

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-|||+.||+.++...|+++|++||.|..+.|...
T Consensus       102 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d  138 (213)
T 4f02_A          102 GVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD  138 (213)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEE
T ss_pred             ccccceECCcccccHHHHHHHHHhhcCCeEEEEeecc
Confidence            3567999999999999999999999999999999764

>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=96.56  E-value=0.0025  Score=48.98  Aligned_cols=36  Identities=22%  Similarity=0.377  Sum_probs=33.5

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccC-ccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYG-EIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfG-eI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++|| +|..|.+.+.
T Consensus       151 ~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~  187 (229)
T 2adc_A          151 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK  187 (229)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSS
T ss_pred             CCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEEC
Confidence            46799999999999999999999999 9999999773

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=96.31  E-value=0.0029  Score=49.02  Aligned_cols=35  Identities=11%  Similarity=0.260  Sum_probs=32.6

Q ss_pred             ceEEecCC----CCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRI----PPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrI----Pp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-||++.|    |+..+...|+.||++||+|..+.+.-.
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~D   41 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFND   41 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEEC
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEec
Confidence            46999999    999999999999999999999999764

>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=96.30  E-value=0.0048  Score=45.48  Aligned_cols=37  Identities=24%  Similarity=0.288  Sum_probs=32.5

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccc--eEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQ--RIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~--RIyL~pE   70 (154)
                      .....|||+.||...+...|+++|++| .|.  .|+|...
T Consensus        40 ~~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d   78 (126)
T 2hgm_A           40 ANDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVD   78 (126)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEEC
Confidence            456889999999999999999999999 566  8888764

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=96.23  E-value=0.0048  Score=44.90  Aligned_cols=31  Identities=10%  Similarity=0.154  Sum_probs=26.6

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEE
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIY   66 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIy   66 (154)
                      --|||+.||+.++...|+++|++||+|..+.
T Consensus         5 ~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~   35 (198)
T 2yh0_A            5 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLT   35 (198)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHHHHHHHTCC
T ss_pred             eEEEEcCCCCCCCHHHHHHHHHHHHhhcccc
Confidence            4699999999999999999999997664443

>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=96.13  E-value=0.0048  Score=48.03  Aligned_cols=35  Identities=23%  Similarity=0.483  Sum_probs=32.1

Q ss_pred             cceEEecCCCCCCCHHHHH----HHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLR----QILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR----~llsqfGeI~RIyL~p   69 (154)
                      .-.|||+.||..++...||    ++|++||.|..|++..
T Consensus         9 ~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~   47 (282)
T 3pgw_A            9 NHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR   47 (282)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcC
Confidence            4589999999999999977    8999999999999875

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=96.01  E-value=0.0028  Score=51.87  Aligned_cols=36  Identities=22%  Similarity=0.400  Sum_probs=32.5

Q ss_pred             CcceEEecCCCCCC---------CHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHM---------DPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M---------~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..-.|||+.||+.+         +...|+.+|++||+|..|++.+
T Consensus       133 ~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~  177 (240)
T 3u1l_A          133 KNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE  177 (240)
T ss_dssp             CCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEG
T ss_pred             CCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEEC
Confidence            34579999999998         6999999999999999999974

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=95.90  E-value=0.0073  Score=40.55  Aligned_cols=32  Identities=25%  Similarity=0.438  Sum_probs=29.1

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEe
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL   67 (154)
                      ..-.|||+.+  .++...|+.+|++||+|..|.+
T Consensus        14 ~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i   45 (97)
T 1x5p_A           14 KGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSM   45 (97)
T ss_dssp             CCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEE
T ss_pred             CCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEe
Confidence            3457999995  8999999999999999999999

>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=95.82  E-value=0.0056  Score=43.95  Aligned_cols=32  Identities=9%  Similarity=0.150  Sum_probs=29.2

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceE
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRI   65 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RI   65 (154)
                      ..-.|||+.||+.++...|+++|++||+|..+
T Consensus        98 ~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~  129 (175)
T 1fje_B           98 AARTLLAKNLSFNITEDELKEVFEDALEIRLV  129 (175)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE
T ss_pred             cCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe
Confidence            35689999999999999999999999998766

>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=95.71  E-value=0.01  Score=42.19  Aligned_cols=28  Identities=11%  Similarity=0.176  Sum_probs=24.7

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCcc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEI   62 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI   62 (154)
                      .-.|||+.||+.++...|+++|++||+|
T Consensus         4 ~~~l~V~nLp~~~t~~~l~~~F~~~g~~   31 (172)
T 2g4b_A            4 ARRLYVGNIPFGITEEAMMDFFNAQMRL   31 (172)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHHHHHHH
T ss_pred             ccEEEEcCCCcccCHHHHHHHHHHHhhh
Confidence            3469999999999999999999999533

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=95.66  E-value=0.0072  Score=40.57  Aligned_cols=30  Identities=3%  Similarity=0.069  Sum_probs=25.8

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCcc
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEI   62 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI   62 (154)
                      ...-.|||+.||+.++...|+++|++|+.|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~   42 (102)
T 2fc8_A           13 QPSKTLFVKGLSEDTTEETLKESFDGSVRA   42 (102)
T ss_dssp             CCCSSEEEECCCTTCCHHHHHHTSTTCSEE
T ss_pred             CCCCEEEEeCCCCccCHHHHHHHhcCCeEE
Confidence            345679999999999999999999988543

>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=95.11  E-value=0.0083  Score=43.05  Aligned_cols=32  Identities=9%  Similarity=0.124  Sum_probs=29.1

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccce
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQR   64 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~R   64 (154)
                      ...-.|||+.||+.++...|+++|++||.|-.
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~   42 (175)
T 1fje_B           11 TTPFNLFIGNLNPNKSVAELKVAISELFAKND   42 (175)
T ss_dssp             SSSEEEEEECCCTTSCHHHHHHHHHHHHHHHT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCcce
Confidence            45678999999999999999999999998765

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.95  E-value=0.036  Score=40.40  Aligned_cols=29  Identities=24%  Similarity=0.529  Sum_probs=25.9

Q ss_pred             eEEecCCCCCCCHHH----HHHHHhccC-ccceE
Q 044301           37 ICYLSRIPPHMDPVK----LRQILSQYG-EIQRI   65 (154)
Q Consensus        37 VIYlSrIPp~M~p~k----lR~llsqfG-eI~RI   65 (154)
                      .||++.||-..++..    |+++|++|| .|-.|
T Consensus        11 ~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~V   44 (96)
T 2diu_A           11 LLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSI   44 (96)
T ss_dssp             EEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEEC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEE
Confidence            499999999999987    558999995 99888

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=93.91  E-value=0.041  Score=40.11  Aligned_cols=36  Identities=22%  Similarity=0.312  Sum_probs=28.5

Q ss_pred             cceEEecCCCCC-----CCH----HHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPH-----MDP----VKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~-----M~p----~klR~llsqfGeI~RIyL~pE   70 (154)
                      -|-|.++.+|+.     +.+    ..|.+.|++||+|--+++...
T Consensus        15 D~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d   59 (95)
T 1ufw_A           15 DATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQG   59 (95)
T ss_dssp             TCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETT
T ss_pred             CCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecC
Confidence            377888888743     444    668999999999999999776

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=93.75  E-value=0.048  Score=38.47  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=22.7

Q ss_pred             CCCCHHHHHHHHhccCccceEEec
Q 044301           45 PHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        45 p~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      +.++...|+++|++||+|..|+|.
T Consensus        27 ~~~te~~L~~~F~~~G~V~~v~i~   50 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKYGEVLNLVLS   50 (100)
T ss_dssp             CSCCHHHHHHHHHTTSCEEEEEEE
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEc
Confidence            679999999999999999999997

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.68  E-value=0.045  Score=39.49  Aligned_cols=35  Identities=20%  Similarity=0.264  Sum_probs=27.6

Q ss_pred             ceEEecCCC----CCCCH----HHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIP----PHMDP----VKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIP----p~M~p----~klR~llsqfGeI~RIyL~pE   70 (154)
                      |-|.++..|    ..+.+    ..|.+.|++||+|--+++...
T Consensus         8 ~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d   50 (91)
T 2dnr_A            8 GTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVED   50 (91)
T ss_dssp             CEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSS
T ss_pred             CeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecC
Confidence            667777777    34445    779999999999999998774

>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=93.12  E-value=0.055  Score=46.35  Aligned_cols=35  Identities=11%  Similarity=0.264  Sum_probs=31.4

Q ss_pred             cceEEecC--CCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSR--IPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSr--IPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      +-.||+++  |+..++...|+++|++||+|.+|.+.+
T Consensus        18 s~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~   54 (345)
T 3tht_A           18 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP   54 (345)
T ss_dssp             CSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT
T ss_pred             CCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC
Confidence            45899999  578999999999999999999998854

>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=92.79  E-value=0.1  Score=36.08  Aligned_cols=35  Identities=23%  Similarity=0.422  Sum_probs=27.8

Q ss_pred             CCcceEEecCCCCCCC-----------HHHHHHHHhccCccceEEe
Q 044301           33 DQRGICYLSRIPPHMD-----------PVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~-----------p~klR~llsqfGeI~RIyL   67 (154)
                      ...-+|+|.+|..-..           ...|+++|++||+|..|++
T Consensus        13 ~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i   58 (112)
T 2dit_A           13 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLL   58 (112)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE
T ss_pred             CCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE
Confidence            3467899999943322           3689999999999999987

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=92.69  E-value=0.15  Score=38.77  Aligned_cols=50  Identities=20%  Similarity=0.353  Sum_probs=40.7

Q ss_pred             hhHHHHHHHhhcCCcceEEecCCCCCCCHHHHHHHHhcc-----CccceEEeccC
Q 044301           21 KKQRLLEEAAKADQRGICYLSRIPPHMDPVKLRQILSQY-----GEIQRIYLAPE   70 (154)
Q Consensus        21 ~kk~l~k~~~k~~k~GVIYlSrIPp~M~p~klR~llsqf-----GeI~RIyL~pE   70 (154)
                      .-|+++.........=+|=|-.||--++.++||+++..|     |.|..|+|.|.
T Consensus         7 eVk~il~s~~~~~~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pD   61 (117)
T 2l9w_A            7 EVKRLLASRNSKELETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSD   61 (117)
T ss_dssp             HHHHHHHCCCTTTTTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETT
T ss_pred             HHHHHHhccCCccCCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecC
Confidence            345555554334446788888999999999999999999     99999999996

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=92.12  E-value=0.18  Score=35.32  Aligned_cols=37  Identities=11%  Similarity=0.198  Sum_probs=29.9

Q ss_pred             CcceEEecCCCCC--C---CHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPH--M---DPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~--M---~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .+-||||.++..-  +   ....|+++|++||+|.+|++...
T Consensus         7 ~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~   48 (105)
T 2pe8_A            7 PTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEI   48 (105)
T ss_dssp             CCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEEC
T ss_pred             CCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecC
Confidence            3568999999631  2   56899999999999999999653

>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=90.14  E-value=0.3  Score=34.80  Aligned_cols=52  Identities=19%  Similarity=0.294  Sum_probs=42.1

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeec
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQ  104 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k  104 (154)
                      |-|-||||.|+...+.+.|+.+.++.-.|..+-+.+.               ....|+--|+.|.+.
T Consensus         4 vVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~---------------~~~~~SRaYi~f~~~   55 (91)
T 1uw4_A            4 VVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSL---------------YPHMYARAYINFKNQ   55 (91)
T ss_dssp             EEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSS---------------TTCCCEEEEEEESSS
T ss_pred             EEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCC---------------CCCcceEEEEEeCCH
Confidence            5588999999999999999999999999988876432               135677788888653

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=89.12  E-value=0.17  Score=45.25  Aligned_cols=34  Identities=21%  Similarity=0.398  Sum_probs=27.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .=-|||+ .|+..++.+|.+||+|||.|..+|+-.
T Consensus        53 ~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~   86 (464)
T 3pq1_A           53 QRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYE   86 (464)
T ss_dssp             HTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEEC
T ss_pred             cceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEc
Confidence            4457888 899999999999999999999999964

>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=86.05  E-value=0.69  Score=33.27  Aligned_cols=37  Identities=11%  Similarity=0.267  Sum_probs=29.1

Q ss_pred             CcceEEecCCCC--CC---CHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPP--HM---DPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp--~M---~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .+-||+|.++-.  .+   -...|++.|++||+|.+|++...
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~   60 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQE   60 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEE
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeec
Confidence            467999999832  11   14789999999999999999764

>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=85.78  E-value=0.45  Score=33.19  Aligned_cols=36  Identities=19%  Similarity=0.331  Sum_probs=26.9

Q ss_pred             cceEEecCC--CCCCCH--------HHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRI--PPHMDP--------VKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrI--Pp~M~p--------~klR~llsqfGeI~RIyL~pE   70 (154)
                      +=||.|.++  |-.+..        ..|+++|++||+|.+|++...
T Consensus         5 s~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~   50 (105)
T 3v4m_A            5 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRP   50 (105)
T ss_dssp             CSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCC
T ss_pred             CeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEecc
Confidence            347777776  434432        589999999999999999654

>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=84.50  E-value=0.84  Score=33.69  Aligned_cols=31  Identities=23%  Similarity=0.432  Sum_probs=27.5

Q ss_pred             cCCcceEEecCCCCCCCHHHHHHHHhccCccc
Q 044301           32 ADQRGICYLSRIPPHMDPVKLRQILSQYGEIQ   63 (154)
Q Consensus        32 ~~k~GVIYlSrIPp~M~p~klR~llsqfGeI~   63 (154)
                      ...+-|+|| ..|+-++-..|.++|++||-|.
T Consensus        13 p~r~HVf~l-~FP~ewKt~DI~~lFs~fggv~   43 (100)
T 1whv_A           13 PKRDHVLHV-TFPKEWKTSDLYQLFSAFGNIQ   43 (100)
T ss_dssp             CCCCSEEEE-ECCTTCCHHHHHHHHTTTCSCC
T ss_pred             CCCCeEEEE-eCChhhhhHHHHHHhhccCCEE
Confidence            356789999 9999999999999999999654

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=84.26  E-value=0.51  Score=34.33  Aligned_cols=53  Identities=17%  Similarity=0.229  Sum_probs=40.8

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeecc
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQE  105 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~  105 (154)
                      |-|-||||.|+...+.+.|+.+=+++-.|..+-+.+.               +...|+--|+.|.+.+
T Consensus        12 vVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s~---------------~~~~~SRAYI~F~~~e   64 (97)
T 2l08_A           12 VVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSL---------------YPHLYSRAYINFRNPD   64 (97)
T ss_dssp             EEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSS---------------CCSCCCCCEEEESCHH
T ss_pred             EEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCC---------------CCCcceEEEEEeCCHH
Confidence            5688999999999999999987777777777765432               2556888888887543

>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=82.74  E-value=0.17  Score=35.32  Aligned_cols=19  Identities=16%  Similarity=0.478  Sum_probs=14.8

Q ss_pred             HHHHH-hccCccceEEeccC
Q 044301           52 LRQIL-SQYGEIQRIYLAPE   70 (154)
Q Consensus        52 lR~ll-sqfGeI~RIyL~pE   70 (154)
                      |+.+| ++||+|.+|++...
T Consensus        43 l~~~f~~~~G~V~~v~i~~~   62 (104)
T 1jmt_A           43 VFTEMEEKYGEVEEMNVCDN   62 (104)
T ss_dssp             HHHHHHHHTCCEEEEEECCS
T ss_pred             HHHHhhccCCceEEEEEEeC
Confidence            34444 99999999999753

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	154
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	98.42
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	98.37
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	98.29
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.29
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.24
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	98.23
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	98.23
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	98.22
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.21
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	98.19
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	98.19
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	98.15
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	98.12
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	98.11
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	98.11
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	98.1
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	98.1
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.1
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	98.09
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	98.09
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	98.08
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	98.06
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	98.05
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	98.04
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.04
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.03
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	98.03
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	98.02
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.01
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	98.0
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	98.0
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	97.99
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	97.94
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	97.94
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	97.93
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	97.93
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	97.91
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	97.9
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	97.89
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	97.88
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	97.87
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	97.87
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	97.87
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	97.83
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	97.79
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	97.79
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	97.78
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	97.78
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	97.77
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	97.76
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	97.76
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	97.75
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	97.75
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	97.74
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	97.71
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	97.71
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	97.69
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	97.62
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	97.55
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	97.48
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	97.45
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	97.44
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	97.44
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	97.41
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	97.4
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	97.39
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	97.33
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	97.31
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	97.28
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	97.19
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	97.18
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	97.16
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	97.09
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	97.08
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	97.03
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	96.97
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	96.97
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	96.87
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	96.79
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	96.7
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	96.28
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	96.07
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	94.62
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	92.86
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	92.03
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	91.71
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	82.39

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=1.1e-07  Score=62.07  Aligned_cols=52  Identities=19%  Similarity=0.374  Sum_probs=41.8

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeeccc
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQES  106 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~  106 (154)
                      |||+.||+.++...|+++|++||+|..+.|.......               +.+.|  |||+|-+.++
T Consensus         2 lfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~---------------~~kg~--afV~f~~~~~   53 (75)
T d1hd0a_           2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITG---------------RSRGF--GFVLFKESES   53 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTT---------------BCCSE--EEEEESSHHH
T ss_pred             EEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCC---------------CcCce--EEEEECCHHH
Confidence            8999999999999999999999999999997653221               12234  8999977654

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.37  E-value=1.3e-07  Score=61.70  Aligned_cols=53  Identities=19%  Similarity=0.419  Sum_probs=41.8

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeeccc
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQES  106 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~  106 (154)
                      -|||+.||+.++...|+++|++||+|..|.|.......               +.+.|  |||+|.+.++
T Consensus         4 ~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~---------------~~~g~--afv~f~~~~~   56 (82)
T d1fxla1           4 NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITG---------------QSLGY--GFVNYIDPKD   56 (82)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTC---------------CEEEE--EEEEESSHHH
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCC---------------Cceee--EEEEECCHHH
Confidence            59999999999999999999999999999997542111               12234  8999977554

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.29  E-value=4e-07  Score=59.64  Aligned_cols=35  Identities=9%  Similarity=0.344  Sum_probs=33.1

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      |-|||+.||+.+++..|+++|++||.|.++.|...
T Consensus         1 grl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~   35 (78)
T d1no8a_           1 GKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD   35 (78)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCS
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEe
Confidence            67999999999999999999999999999999764

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.29  E-value=3.1e-07  Score=62.52  Aligned_cols=33  Identities=15%  Similarity=0.438  Sum_probs=31.4

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      -+|||++||+.++...|++||++||+|.+|+|.
T Consensus        11 ~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~   43 (111)
T d1whxa_          11 TVILAKNLPAGTLAAEIQETFSRFGSLGRVLLP   43 (111)
T ss_dssp             EEEEEESCCTTCCHHHHHHHHHTTSCEEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHhhhhccCCccEEEee
Confidence            389999999999999999999999999999994

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.24  E-value=2.4e-07  Score=61.74  Aligned_cols=33  Identities=12%  Similarity=0.520  Sum_probs=31.8

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      |||+.||+.++...|+++|++||+|.++.|...
T Consensus         4 lfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d   36 (85)
T d2u2fa_           4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKD   36 (85)
T ss_dssp             EEEETCCSSCCSHHHHHHHTSSSCEEEEEEECC
T ss_pred             EEEECCCCCCCHHHHHHHHHhcCccceEEeecc
Confidence            899999999999999999999999999999875

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.23  E-value=5.8e-07  Score=59.25  Aligned_cols=52  Identities=19%  Similarity=0.464  Sum_probs=41.5

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeeccc
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQES  106 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~  106 (154)
                      ||++.||+.++...|+++|++||.|.+++|.....+             +.  .+.|  |+|+|-+.++
T Consensus         2 lfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t-------------~~--~rG~--~FV~f~~~~~   53 (75)
T d1x0fa1           2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKT-------------NK--RRGF--CFITFKEEEP   53 (75)
T ss_dssp             EEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTT-------------CC--TTCC--EEEEESSSHH
T ss_pred             EEEcCCCCCCCHHHHHHHHHHhCCcccccccccccc-------------cc--cccE--EEEEECCHHH
Confidence            899999999999999999999999999999765321             11  2234  8899977554

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.23  E-value=2.8e-07  Score=60.79  Aligned_cols=33  Identities=15%  Similarity=0.394  Sum_probs=31.3

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      |||+.||+.++...|+++|++||+|.++.|...
T Consensus         3 lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d   35 (77)
T d1uawa_           3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRD   35 (77)
T ss_dssp             EEEESCCSSCCSHHHHHHHTTTSCCCCEEEECC
T ss_pred             EEEeCCCCcCCHHHHHHHHHHhCCcceeeeecc
Confidence            899999999999999999999999999999764

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.22  E-value=3.7e-07  Score=61.00  Aligned_cols=36  Identities=22%  Similarity=0.400  Sum_probs=33.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-+|||+.||+.++...|+++|++||+|.+|.|...
T Consensus         7 ~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d   42 (88)
T d1rk8a_           7 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLD   42 (88)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCccccccccc
Confidence            458999999999999999999999999999999865

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.21  E-value=7.2e-07  Score=60.37  Aligned_cols=37  Identities=19%  Similarity=0.453  Sum_probs=33.3

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..--|||+.||+.++...|+.+|++||.|..++|...
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~   43 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKK   43 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEec
Confidence            3445999999999999999999999999999999654

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.19  E-value=3e-07  Score=62.75  Aligned_cols=34  Identities=21%  Similarity=0.392  Sum_probs=32.1

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -|||+.||+.++...|+++|++||+|.+|++...
T Consensus        10 tl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~   43 (104)
T d1p1ta_          10 SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYD   43 (104)
T ss_dssp             CEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEE
T ss_pred             EEEEECCCCcCCHHHHHHhhhccccccccccccc
Confidence            3999999999999999999999999999999765

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.19  E-value=8.8e-07  Score=59.21  Aligned_cols=37  Identities=22%  Similarity=0.319  Sum_probs=33.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .+-.|||+.||+.++...|+++|++||.|.+|.|...
T Consensus         7 ~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d   43 (90)
T d2cqia1           7 QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITE   43 (90)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecc
Confidence            3557999999999999999999999999999998764

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.15  E-value=2.9e-07  Score=61.66  Aligned_cols=38  Identities=24%  Similarity=0.539  Sum_probs=35.0

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .....|||+.||+.++...|+++|++||+|.+|+|...
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d   43 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKD   43 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhccccccccccc
Confidence            45678999999999999999999999999999999864

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.12  E-value=7.2e-07  Score=59.21  Aligned_cols=35  Identities=31%  Similarity=0.501  Sum_probs=32.5

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      --|||+.||+.++...|+++|++||+|.++.|...
T Consensus         7 ~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d   41 (85)
T d1fxla2           7 ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVD   41 (85)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCccccccccc
Confidence            35999999999999999999999999999999764

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.11  E-value=2.7e-06  Score=56.34  Aligned_cols=37  Identities=19%  Similarity=0.465  Sum_probs=33.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      .+=|||+.||+.++...|+.+|++||.|.++.+...+
T Consensus         5 ~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~   41 (90)
T d1x5sa1           5 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDR   41 (90)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCS
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccceeecccc
Confidence            4559999999999999999999999999999887754

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.11  E-value=1.2e-06  Score=60.00  Aligned_cols=36  Identities=14%  Similarity=0.266  Sum_probs=33.1

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..=||||+.||+.+++..|+++|++||.|.+|.|.+
T Consensus        14 ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~   49 (104)
T d1wexa_          14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP   49 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEe
Confidence            345999999999999999999999999999999964

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=98.10  E-value=6.5e-07  Score=58.33  Aligned_cols=34  Identities=15%  Similarity=0.262  Sum_probs=32.0

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .|||+.||+.++...|+++|++||.|.++.|...
T Consensus         4 ~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~   37 (82)
T d1b7fa1           4 NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRD   37 (82)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEE
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeee
Confidence            4999999999999999999999999999999764

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.10  E-value=9.4e-07  Score=57.83  Aligned_cols=31  Identities=19%  Similarity=0.432  Sum_probs=27.9

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceE-Eec
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRI-YLA   68 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RI-yL~   68 (154)
                      |||+.||+.++...|+++|++||.|.++ .+.
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~   32 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIM   32 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEEC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEE
Confidence            7999999999999999999999999775 443

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.10  E-value=8e-07  Score=57.94  Aligned_cols=53  Identities=15%  Similarity=0.286  Sum_probs=39.5

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeeccc
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQES  106 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~  106 (154)
                      .|||+.||+.++...|+++|++||.|.++.+.+.+...             .+  +.|  |||+|.+.+.
T Consensus         3 tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~-------------~~--~g~--afV~f~~~e~   55 (81)
T d2ghpa1           3 TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFN-------------TS--RRF--AYIDVTSKED   55 (81)
T ss_dssp             EEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC----------------------CCE--EEEECSSHHH
T ss_pred             EEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccc-------------cc--cce--eEEEECCHHH
Confidence            69999999999999999999999999988876543211             11  122  8999987654

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.09  E-value=1.4e-06  Score=55.54  Aligned_cols=34  Identities=9%  Similarity=0.317  Sum_probs=31.5

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      |||+.||+.++...|+++|++||.|..+.+....
T Consensus         2 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~   35 (75)
T d2msta_           2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDK   35 (75)
T ss_dssp             EEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCT
T ss_pred             EEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeec
Confidence            8999999999999999999999999999886653

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.09  E-value=2.1e-06  Score=57.78  Aligned_cols=38  Identities=24%  Similarity=0.334  Sum_probs=34.2

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..+-.|||+.||+.++...|+++|++||+|.++.|...
T Consensus         9 ~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~   46 (93)
T d2cq3a1           9 STPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFN   46 (93)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcceeeecccccc
Confidence            34567999999999999999999999999999998764

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.08  E-value=1.3e-06  Score=57.23  Aligned_cols=34  Identities=21%  Similarity=0.336  Sum_probs=32.3

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .||++.||+.++...|+++|++||+|.+|+|...
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d   35 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRD   35 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEec
Confidence            5999999999999999999999999999999875

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.06  E-value=1.8e-06  Score=57.57  Aligned_cols=36  Identities=17%  Similarity=0.418  Sum_probs=33.1

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||+|..|.|...
T Consensus         5 ~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d   40 (89)
T d2cqba1           5 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLD   40 (89)
T ss_dssp             CSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCC
T ss_pred             CcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccc
Confidence            348999999999999999999999999999999754

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=1.7e-06  Score=59.39  Aligned_cols=34  Identities=24%  Similarity=0.554  Sum_probs=31.9

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      -+|||+.||..++...|+++|++||+|-.|++..
T Consensus         8 r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~   41 (114)
T d2f9da1           8 RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGN   41 (114)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhhcCCeEeecccc
Confidence            3799999999999999999999999999999964

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=2.2e-06  Score=57.66  Aligned_cols=33  Identities=9%  Similarity=0.235  Sum_probs=31.0

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCc-cceEEeccC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGE-IQRIYLAPE   70 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGe-I~RIyL~pE   70 (154)
                      |||+.||+.++...|+++|++||+ |..+.|.+.
T Consensus         4 LyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~   37 (96)
T d2disa1           4 LFIGGIPKMKKREEILEEIAKVTEGVLDVIVYAS   37 (96)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSS
T ss_pred             EEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeee
Confidence            899999999999999999999996 999998865

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=1.1e-06  Score=56.76  Aligned_cols=33  Identities=24%  Similarity=0.486  Sum_probs=31.1

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      |||+.||+.++...|+++|++||.|.++.+...
T Consensus         5 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~   37 (79)
T d1l3ka2           5 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTD   37 (79)
T ss_dssp             EEEECCTTTCCHHHHHHHHTTTSCEEEEEEEEC
T ss_pred             EEECCCCCcCCHHHHHHHHHHhccccccccccC
Confidence            899999999999999999999999999988764

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.03  E-value=1.7e-06  Score=56.53  Aligned_cols=34  Identities=15%  Similarity=0.299  Sum_probs=32.0

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -||+++||+.++...|+++|++||.|..|.|.+.
T Consensus         2 tv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~   35 (75)
T d2ghpa2           2 TVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADS   35 (75)
T ss_dssp             EEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHhcCCceEEEEEEee
Confidence            3899999999999999999999999999999875

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.03  E-value=8.7e-07  Score=56.59  Aligned_cols=34  Identities=18%  Similarity=0.328  Sum_probs=31.7

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      |||+.||+.++...|+++|++||.|.++.+....
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~   34 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDK   34 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCS
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhcccccccccccc
Confidence            7999999999999999999999999999887753

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.02  E-value=2.5e-06  Score=59.09  Aligned_cols=53  Identities=15%  Similarity=0.325  Sum_probs=42.3

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeeccc
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQES  106 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~  106 (154)
                      -|||++||+.++...|+++|++||+|..++|.......               ..+.|  |+|+|.+.++
T Consensus        22 ~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~---------------~~kg~--aFV~f~~~~~   74 (103)
T d1x4ba1          22 KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASK---------------RSRGF--GFVTFSSMAE   74 (103)
T ss_dssp             EEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTS---------------SCCSE--EEEECSSHHH
T ss_pred             EEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCC---------------CccCe--EEEEECCHHH
Confidence            49999999999999999999999999999998753211               12233  8899987654

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.01  E-value=1.8e-06  Score=56.70  Aligned_cols=33  Identities=12%  Similarity=0.290  Sum_probs=31.2

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      |||+.||+.++...|+++|++||+|..++|...
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~   33 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKK   33 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEE
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecc
Confidence            799999999999999999999999999999764

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.00  E-value=2.1e-06  Score=57.83  Aligned_cols=36  Identities=14%  Similarity=0.330  Sum_probs=33.5

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .-.|||+.||+.++...|+++|++||+|.+|.|...
T Consensus         7 s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~   42 (93)
T d1h2vz_           7 SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLD   42 (93)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccc
Confidence            457999999999999999999999999999999875

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.00  E-value=2.6e-06  Score=57.64  Aligned_cols=34  Identities=15%  Similarity=0.294  Sum_probs=32.0

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      =.|||+.||+.++...|+++|++||+|.++.+.+
T Consensus        18 ~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~   51 (97)
T d1whya_          18 TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK   51 (97)
T ss_dssp             SCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECS
T ss_pred             CEEEEcCCCCCCCHHHHHHHHHhhcccceEeeec
Confidence            5799999999999999999999999999999864

>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=97.99  E-value=1.7e-06  Score=57.54  Aligned_cols=37  Identities=11%  Similarity=0.324  Sum_probs=33.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccCC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPED   71 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd   71 (154)
                      .-.|||+.||+.++...|+++|++||.|..+.+....
T Consensus         8 ~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~   44 (98)
T d1x4ha1           8 GKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHP   44 (98)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCS
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHhccccceeeeecccc
Confidence            4579999999999999999999999999999987653

>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=97.94  E-value=2.9e-06  Score=55.89  Aligned_cols=34  Identities=21%  Similarity=0.460  Sum_probs=32.3

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -|||+.||+.++...|+++|++||.|..++|...
T Consensus         8 ~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d   41 (85)
T d1b7fa2           8 NLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRD   41 (85)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEEC
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecc
Confidence            4999999999999999999999999999999865

>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=97.94  E-value=3.9e-06  Score=56.86  Aligned_cols=35  Identities=23%  Similarity=0.514  Sum_probs=32.0

Q ss_pred             ceEEecCCCCC-CCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPH-MDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~-M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -||||+.|||. ++...|+++|++||+|.+|.+.+.
T Consensus         3 ~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~   38 (109)
T d2adca1           3 SVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFN   38 (109)
T ss_dssp             SEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCT
T ss_pred             CEEEEeCCCcccCCHHHHHHHHhhccccceEEEEec
Confidence            48999999775 999999999999999999999764

>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=97.93  E-value=3.6e-06  Score=56.08  Aligned_cols=35  Identities=17%  Similarity=0.646  Sum_probs=32.4

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      +--|||+.||+.++...|+++|++||+|.+|++.+
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~   42 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK   42 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEET
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeec
Confidence            34699999999999999999999999999999974

>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=97.93  E-value=5.3e-06  Score=56.76  Aligned_cols=52  Identities=17%  Similarity=0.511  Sum_probs=41.6

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeeccc
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQES  106 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~  106 (154)
                      |||+.||+.++...|+++|++||+|..|+|......             |.+  +.|  |+|+|-+.++
T Consensus        13 lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t-------------g~~--kg~--afV~f~~~~~   64 (103)
T d2cqda1          13 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQT-------------GKS--RGY--GFVTMADRAA   64 (103)
T ss_dssp             EEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSS-------------CCC--CSE--EEEEESSHHH
T ss_pred             EEEeCCCCcCcHHHHHHHHhhcccccceeccccccc-------------ccc--CCe--EEEEECCHHH
Confidence            999999999999999999999999999999875322             111  223  7899987654

>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=97.91  E-value=2.7e-06  Score=57.28  Aligned_cols=38  Identities=13%  Similarity=0.206  Sum_probs=33.7

Q ss_pred             CCcceEEecCCCCC-CCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPH-MDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~-M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..+=||||+.||.. ++...|++||++||+|.+|.+.+.
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~   44 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK   44 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeecc
Confidence            44568999999997 789999999999999999999764

>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=97.90  E-value=8.7e-06  Score=54.72  Aligned_cols=36  Identities=11%  Similarity=0.244  Sum_probs=33.4

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...|||+.||..++...|+++|++||.|..++|...
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d   44 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKD   44 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeec
Confidence            457999999999999999999999999999999765

>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=97.89  E-value=5.4e-06  Score=55.72  Aligned_cols=35  Identities=23%  Similarity=0.543  Sum_probs=31.7

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      --|||+.||+.++...|+++|++||.|..+.+...
T Consensus        15 ~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~   49 (95)
T d1x4aa1          15 CRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR   49 (95)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEeccc
Confidence            36999999999999999999999999999887543

>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=97.88  E-value=2.4e-06  Score=60.69  Aligned_cols=34  Identities=29%  Similarity=0.582  Sum_probs=32.4

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .|||+.||+.++...|+.+|++||+|..|++...
T Consensus        44 ~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d   77 (139)
T d1u6fa1          44 NLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCD   77 (139)
T ss_dssp             EEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEE
T ss_pred             EEEEeCCCCCCCHHHHHHHHHhhccccccccccc
Confidence            6999999999999999999999999999999775

>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=97.87  E-value=5.3e-06  Score=55.01  Aligned_cols=35  Identities=11%  Similarity=0.238  Sum_probs=32.4

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      --|||+.||..++...|+++|++||.|.++.|...
T Consensus         7 ~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d   41 (84)
T d1l3ka1           7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRD   41 (84)
T ss_dssp             GEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             cEEEEECCCCCCCHHHHHHHHHhhccccceeeccc
Confidence            35999999999999999999999999999999754

>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=97.87  E-value=3.7e-06  Score=56.80  Aligned_cols=38  Identities=13%  Similarity=0.274  Sum_probs=34.6

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..+.-||++.||+.++...|+++|++||.|.++.|...
T Consensus         6 ~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d   43 (90)
T d2cqga1           6 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKD   43 (90)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             cCCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccC
Confidence            45567999999999999999999999999999999864

>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=97.87  E-value=7.3e-06  Score=53.81  Aligned_cols=33  Identities=21%  Similarity=0.554  Sum_probs=31.7

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      +|||+.||+.++...|+.+|++||+|.++.+.+
T Consensus        10 tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~   42 (83)
T d2b0ga1          10 ILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVP   42 (83)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTTSTTEEEEEECT
T ss_pred             EEEEECCCCCCCHHHHHhhhccCccEEEeeeec
Confidence            899999999999999999999999999999965

>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=97.83  E-value=1e-05  Score=55.67  Aligned_cols=34  Identities=12%  Similarity=0.424  Sum_probs=32.5

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .|||+.||..++...|+.+|++||+|.+|+|...
T Consensus        20 tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d   53 (101)
T d2cq4a1          20 TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISD   53 (101)
T ss_dssp             EEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCS
T ss_pred             EEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeec
Confidence            6999999999999999999999999999999875

>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=97.79  E-value=7.4e-06  Score=53.52  Aligned_cols=35  Identities=17%  Similarity=0.247  Sum_probs=32.4

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||+.++...|+++|++||.|.++.|...
T Consensus        10 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~   44 (83)
T d2cqca1          10 CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYD   44 (83)
T ss_dssp             GCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCCcccccccc
Confidence            37999999999999999999999999999998754

>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=97.79  E-value=7.6e-06  Score=54.34  Aligned_cols=34  Identities=15%  Similarity=0.331  Sum_probs=31.8

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      .|||+.||+.++...|+++|++||.|..|.|...
T Consensus         8 tvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~   41 (85)
T d1zh5a2           8 SVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRT   41 (85)
T ss_dssp             EEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhcccccceeeee
Confidence            5999999999999999999999999999998653

>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=97.78  E-value=1.4e-05  Score=53.00  Aligned_cols=38  Identities=16%  Similarity=0.296  Sum_probs=34.2

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      +..+-|||+.||+.++...|+++|++||.|..+.|...
T Consensus         6 s~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~   43 (89)
T d1cvja2           6 SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD   43 (89)
T ss_dssp             TTTTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEee
Confidence            34567999999999999999999999999999998764

>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=97.78  E-value=6e-06  Score=56.20  Aligned_cols=36  Identities=22%  Similarity=0.462  Sum_probs=32.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      +--|||+.||+.++...|+++|++||.|..+.+...
T Consensus        18 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~   53 (101)
T d1x5oa1          18 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRD   53 (101)
T ss_dssp             TTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecc
Confidence            446999999999999999999999999999888664

>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=97.77  E-value=1.1e-05  Score=54.78  Aligned_cols=35  Identities=29%  Similarity=0.460  Sum_probs=32.9

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      =.|||+.||+.++...|+++|++||+|.+|++.+.
T Consensus        19 ~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~   53 (96)
T d1x4ga1          19 CTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE   53 (96)
T ss_dssp             CEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT
T ss_pred             CEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec
Confidence            36999999999999999999999999999999864

>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=97.76  E-value=4.2e-06  Score=55.50  Aligned_cols=56  Identities=11%  Similarity=0.192  Sum_probs=40.4

Q ss_pred             cceEEecCCCCCCC-HHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeeccc
Q 044301           35 RGICYLSRIPPHMD-PVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQES  106 (154)
Q Consensus        35 ~GVIYlSrIPp~M~-p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~  106 (154)
                      +=-|||+.||+.++ ...|+++|++||+|.++.|...+....              +.+.|  |+|+|-+.++
T Consensus         4 ~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~--------------~~kg~--afV~f~~~~~   60 (86)
T d2ghpa3           4 GREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHS--------------FNNCC--AFMVFENKDS   60 (86)
T ss_dssp             TTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC-----------------CCCEE--EEEEESSHHH
T ss_pred             CCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCcc--------------cccee--eeEEECCHHH
Confidence            34699999999986 567999999999999999865432211              11123  8899977654

>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=97.76  E-value=1.7e-05  Score=53.44  Aligned_cols=38  Identities=13%  Similarity=0.326  Sum_probs=34.1

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..+.-|||+.||+.++...|+++|++||.|.+++|...
T Consensus         6 ~~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d   43 (99)
T d1whwa_           6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPID   43 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCC
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeeccc
Confidence            34567999999999999999999999999999999654

>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=97.75  E-value=1e-05  Score=53.51  Aligned_cols=35  Identities=9%  Similarity=0.302  Sum_probs=32.4

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .=+|||+.||+.++...|+++|++||.|..|.+.+
T Consensus         8 s~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~   42 (88)
T d2cq1a1           8 SRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLK   42 (88)
T ss_dssp             CSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhcccccccccccc
Confidence            34899999999999999999999999999998864

>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=97.75  E-value=5.8e-06  Score=55.35  Aligned_cols=37  Identities=8%  Similarity=0.440  Sum_probs=33.3

Q ss_pred             CcceEEecCCCCCCCHHHH---HHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKL---RQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~kl---R~llsqfGeI~RIyL~pE   70 (154)
                      .+-.||++.||+.++...|   +++|++||.|.+|.+...
T Consensus         7 q~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~   46 (89)
T d2cpia1           7 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNS   46 (89)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECC
T ss_pred             ecCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeec
Confidence            4557999999999999999   678999999999999765

>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=97.74  E-value=7.7e-06  Score=54.25  Aligned_cols=31  Identities=16%  Similarity=0.243  Sum_probs=29.5

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      ||++.||+.++...|+++|++||+|.++.+.
T Consensus         3 vfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~   33 (87)
T d3begb1           3 VVVSGLPPSGSWQDLKDHMREAGDVCYADVY   33 (87)
T ss_dssp             EEEEECCSSCCTTHHHHHHGGGSCEEEEEEC
T ss_pred             EEEECCCCcCCHHHHHHHHhhhccccccccc
Confidence            8999999999999999999999999999874

>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=97.71  E-value=1.3e-05  Score=54.61  Aligned_cols=35  Identities=11%  Similarity=0.302  Sum_probs=32.6

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -.|||+.||+.++...|+++|++||.|-.+.+...
T Consensus        19 ~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~   53 (102)
T d2cpza1          19 ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFID   53 (102)
T ss_dssp             CCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhhccccccceeee
Confidence            36999999999999999999999999999998865

>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=97.71  E-value=1.1e-05  Score=53.66  Aligned_cols=34  Identities=24%  Similarity=0.551  Sum_probs=31.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      .--|||+.||+.+++..|+++|++||+|.++++.
T Consensus         5 s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~   38 (88)
T d1wf0a_           5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIP   38 (88)
T ss_dssp             CCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEe
Confidence            4579999999999999999999999999999764

>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=97.69  E-value=8e-06  Score=56.02  Aligned_cols=37  Identities=16%  Similarity=0.135  Sum_probs=32.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ..--|||+.||..++...|+++|++||+|.+|.+...
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~   42 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK   42 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEE
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEee
Confidence            3446899999999999999999999999999999643

>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=97.62  E-value=7.3e-06  Score=54.30  Aligned_cols=57  Identities=18%  Similarity=0.281  Sum_probs=42.5

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeeccc
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQES  106 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~  106 (154)
                      |||+.||..++...|+++|++||.|..+.+.+.+.....        ..  .+.+.|  |+|+|-+.+.
T Consensus         4 lyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~--------~~--~~~kg~--afV~f~~~e~   60 (90)
T d1u2fa_           4 LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAV--------QI--NQDKNF--AFLEFRSVDE   60 (90)
T ss_dssp             EEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEEC--------CE--ETTTTE--EEEEESSCTT
T ss_pred             EEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeec--------cc--CCCceE--EEEEeCCHHH
Confidence            899999999999999999999999998888766532211        11  122234  7899977665

>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=97.55  E-value=2e-05  Score=53.69  Aligned_cols=36  Identities=19%  Similarity=0.315  Sum_probs=32.3

Q ss_pred             CcceEEecCCCC-CCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPP-HMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp-~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..-+|||+.||. .++...|+.+|++||.|.+|.+.+
T Consensus        17 ~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~   53 (99)
T d1x4fa1          17 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR   53 (99)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET
T ss_pred             CCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEee
Confidence            345899999997 599999999999999999999964

>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=97.48  E-value=4.6e-05  Score=54.49  Aligned_cols=34  Identities=12%  Similarity=0.255  Sum_probs=31.9

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      -|||+.||+.++...|+++|++||+|..+.+..+
T Consensus         8 ~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~   41 (183)
T d1u1qa_           8 KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRD   41 (183)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeec
Confidence            4999999999999999999999999999998765

>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=97.45  E-value=2.3e-05  Score=52.27  Aligned_cols=38  Identities=11%  Similarity=0.157  Sum_probs=31.6

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-.|||+.||+..+...|+++|++||.|..+-+...
T Consensus         6 ~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~   43 (101)
T d2cpea1           6 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQ   43 (101)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCC
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeeccc
Confidence            34568999999999999999999999999976544443

>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=97.44  E-value=5.1e-05  Score=49.30  Aligned_cols=32  Identities=28%  Similarity=0.498  Sum_probs=29.1

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      =.||++.+|  ++...|+++|++||+|.+|.+.+
T Consensus         6 ~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~   37 (79)
T d2bz2a1           6 NTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDP   37 (79)
T ss_dssp             CEEEEECSS--CCHHHHHHHHSTTCCCSCEEEET
T ss_pred             CEEEEECCC--CCHHHHHHHHhccCccceeeecc
Confidence            369999997  99999999999999999999853

>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=97.44  E-value=8e-05  Score=48.86  Aligned_cols=34  Identities=24%  Similarity=0.348  Sum_probs=30.9

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      -+|||+.||+.++...|+++|++||.|-++.+..
T Consensus        11 ~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~   44 (88)
T d2adca2          11 ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFF   44 (88)
T ss_dssp             SEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHhhccCCEEEEEEee
Confidence            4899999999999999999999999998877654

>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=97.41  E-value=9.8e-06  Score=54.53  Aligned_cols=34  Identities=9%  Similarity=0.141  Sum_probs=31.1

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      +-.|||+.||+.++...|+++|++||.|..+.|.
T Consensus        13 ~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~   46 (91)
T d1fjeb1          13 PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVV   46 (91)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCC
T ss_pred             CcEEEEeCccCcchHHHHHHHHhcCCcEEEeeee
Confidence            4479999999999999999999999999988775

>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=97.40  E-value=6.4e-05  Score=51.10  Aligned_cols=34  Identities=15%  Similarity=0.174  Sum_probs=31.2

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      .-.|||+.||+.++...|+++|++||+|.++.+.
T Consensus        15 ~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~   48 (98)
T d1wg4a_          15 DFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQ   48 (98)
T ss_dssp             SCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhhccccccccc
Confidence            3469999999999999999999999999999874

>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=97.39  E-value=9e-05  Score=49.86  Aligned_cols=35  Identities=14%  Similarity=0.317  Sum_probs=30.6

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      +-.|||+.||+.++...|+++|++|| |-.+.+...
T Consensus        15 ~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~   49 (104)
T d1wi8a_          15 PYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPRE   49 (104)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeee
Confidence            45799999999999999999999999 667777654

>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=97.33  E-value=0.00011  Score=47.99  Aligned_cols=33  Identities=6%  Similarity=-0.028  Sum_probs=29.8

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEe
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL   67 (154)
                      .-+|||+.||+.++...|+++|++||.|.-+.+
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~   40 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERV   40 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEE
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEE
Confidence            458999999999999999999999999876665

>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=97.31  E-value=2.4e-05  Score=52.40  Aligned_cols=34  Identities=15%  Similarity=0.320  Sum_probs=31.2

Q ss_pred             ceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           36 GICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      -.|||+.||+.++...|+++|++||.|-.+.+..
T Consensus        19 ~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~   52 (102)
T d2cpxa1          19 KVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQF   52 (102)
T ss_dssp             SEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHhhccceeeEEeec
Confidence            4799999999999999999999999998887754

>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=97.28  E-value=9.8e-05  Score=47.80  Aligned_cols=29  Identities=14%  Similarity=0.445  Sum_probs=25.5

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEe
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL   67 (154)
                      ||||.||+.++...|+++|++|| |..+++
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~   29 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFV   29 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEE
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceee
Confidence            79999999999999999999999 544444

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.19  E-value=0.00014  Score=50.38  Aligned_cols=33  Identities=18%  Similarity=0.247  Sum_probs=30.7

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ++|++.||+..+...|+.+|++||+|..|.+.+
T Consensus        13 ~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~   45 (113)
T d1owxa_          13 LKFSGDLDDQTCREDLHILFSNHGEIKWIDFVR   45 (113)
T ss_dssp             EEEEESCCSSCCHHHHHHHTCSSCCEEEEECCT
T ss_pred             EEEECCCCCCCCHHHHHHHHHhcCChheEEEec
Confidence            459999999999999999999999999999974

>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=97.18  E-value=0.00024  Score=48.05  Aligned_cols=58  Identities=19%  Similarity=0.163  Sum_probs=43.0

Q ss_pred             cCCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeeccc
Q 044301           32 ADQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQES  106 (154)
Q Consensus        32 ~~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~~  106 (154)
                      ....++|||+.||...+...|+++|++||.|....+...+...             .    ..-.|+|+|-+.+.
T Consensus        12 ~~~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~-------------~----~kG~afV~F~~~e~   69 (104)
T d1wg5a_          12 TANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQG-------------R----STGEAFVQFASQEI   69 (104)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSS-------------C----BCSEEEEEESSHHH
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCC-------------C----cceEEEEEeCCHHH
Confidence            3568899999999999999999999999988765554443221             0    11248899987654

>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=97.16  E-value=0.00019  Score=47.43  Aligned_cols=34  Identities=21%  Similarity=0.482  Sum_probs=29.3

Q ss_pred             ceEEecCCCCCCCHHHHH----HHHhccCccceEEecc
Q 044301           36 GICYLSRIPPHMDPVKLR----QILSQYGEIQRIYLAP   69 (154)
Q Consensus        36 GVIYlSrIPp~M~p~klR----~llsqfGeI~RIyL~p   69 (154)
                      -.|||+.||+.++...|+    ++|++||+|.+|.+..
T Consensus         4 ~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~   41 (91)
T d1nu4a_           4 HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR   41 (91)
T ss_dssp             SEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCH
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEee
Confidence            369999999999998886    4689999999998853

>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=97.09  E-value=0.00011  Score=47.90  Aligned_cols=28  Identities=18%  Similarity=0.261  Sum_probs=25.8

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceE
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRI   65 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RI   65 (154)
                      |||+.||+.++...|+++|++||.|..+
T Consensus         4 l~V~nLp~~~te~~L~~~F~~~G~i~~~   31 (80)
T d2cqha1           4 LYIGNLSPAVTADDLRQLFGDRKLPLAG   31 (80)
T ss_dssp             EEEECCCTTCCHHHHHHHHHHTTCCCSS
T ss_pred             EEEECCCCCCCHHHHHHHHHHhCcEEEe
Confidence            8999999999999999999999987543

>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=97.08  E-value=0.00016  Score=48.29  Aligned_cols=32  Identities=9%  Similarity=0.132  Sum_probs=29.1

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEE
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIY   66 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIy   66 (154)
                      .-.|||+.||+.++...|+++|++||.|.++.
T Consensus        16 ~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~   47 (96)
T d1fjca_          16 ARTLLAKNLSFNITEDELKEVFEDALEIRLVS   47 (96)
T ss_dssp             GGEEEEESCCSSCCHHHHHHHHCSEEEECCEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcccceeee
Confidence            45799999999999999999999999987764

>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=97.03  E-value=0.00015  Score=47.22  Aligned_cols=31  Identities=13%  Similarity=0.144  Sum_probs=28.3

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccce
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQR   64 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~R   64 (154)
                      .+-+|||+.||..++...|+++|++||.|..
T Consensus         8 ~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~   38 (86)
T d2cqpa1           8 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPG   38 (86)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhccccee
Confidence            4568999999999999999999999999854

>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=96.97  E-value=0.00024  Score=47.72  Aligned_cols=35  Identities=11%  Similarity=0.072  Sum_probs=29.2

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      .--|||+.||..++...|+++|++||.|..+.+.+
T Consensus         8 ~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~   42 (103)
T d2cpya1           8 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVL   42 (103)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEEC
T ss_pred             ceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEE
Confidence            34599999999999999999999999987533333

>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=96.97  E-value=0.00014  Score=49.27  Aligned_cols=31  Identities=16%  Similarity=0.376  Sum_probs=28.1

Q ss_pred             eEEecCCCCC-CCHHHHHHHHhccCccceEEe
Q 044301           37 ICYLSRIPPH-MDPVKLRQILSQYGEIQRIYL   67 (154)
Q Consensus        37 VIYlSrIPp~-M~p~klR~llsqfGeI~RIyL   67 (154)
                      .|||+.||+. .+...|+++|++||.|.+|.+
T Consensus        17 ~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i   48 (98)
T d1wf2a_          17 RVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV   48 (98)
T ss_dssp             CEEEEEECTTTCCHHHHHHSSTTSSCEEEEEE
T ss_pred             EEEEeCCCcccCCHHHHHHHHhhcCCEEEEEE
Confidence            4999999875 678889999999999999988

>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=96.87  E-value=0.00031  Score=49.98  Aligned_cols=38  Identities=21%  Similarity=0.342  Sum_probs=34.2

Q ss_pred             CCcceEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      ....-|||+.||+..+...|+.+|++||.|..+.+...
T Consensus        95 ~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~  132 (183)
T d1u1qa_          95 LTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTD  132 (183)
T ss_dssp             CCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEEC
T ss_pred             cccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecc
Confidence            44567999999999999999999999999999988764

>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=96.79  E-value=0.00033  Score=47.83  Aligned_cols=34  Identities=12%  Similarity=0.278  Sum_probs=29.5

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEeccC
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~pE   70 (154)
                      +|+.+.||+.++...|+++|++||.|..|++.+.
T Consensus        22 ~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~   55 (101)
T d2cq2a1          22 VVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN   55 (101)
T ss_dssp             EEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT
T ss_pred             EEECCCCCCCCCHHHHHHHHHhhCcccEEeeccC
Confidence            3444779999999999999999999999998753

>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=96.70  E-value=0.00054  Score=45.28  Aligned_cols=26  Identities=12%  Similarity=0.307  Sum_probs=24.3

Q ss_pred             cceEEecCCCCCCCHHHHHHHHhccC
Q 044301           35 RGICYLSRIPPHMDPVKLRQILSQYG   60 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p~klR~llsqfG   60 (154)
                      +-.|||+.||+.++...|++||++||
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G   30 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYD   30 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSC
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcC
Confidence            34699999999999999999999999

>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=96.28  E-value=0.00066  Score=46.56  Aligned_cols=31  Identities=10%  Similarity=0.187  Sum_probs=27.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccce
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQR   64 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~R   64 (154)
                      ..-+|||+.||..++...|+++|+.||.|..
T Consensus        17 ~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~   47 (112)
T d1wela1          17 AGFCVYLKGLPFEAENKHVIDFFKKLDIVED   47 (112)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTT
T ss_pred             CCeEEEEecCCCcCcHHHHhhHHhhcccccc
Confidence            3458999999999999999999999998854

>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=96.07  E-value=0.0016  Score=43.68  Aligned_cols=35  Identities=9%  Similarity=0.119  Sum_probs=29.9

Q ss_pred             CcceEEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           34 QRGICYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        34 k~GVIYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      ..-+|||+.||...+...|+++|+.||. -+|++..
T Consensus        14 ~~~~v~v~nLp~~~te~dl~~~F~~~~~-~~v~~~~   48 (102)
T d1weza_          14 TGHCVHMRGLPYRATENDIYNFFSPLNP-MRVHIEI   48 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCSCCC-SEEEEEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHhccCc-ceeeeEE
Confidence            4569999999999999999999999984 4676654

>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=94.62  E-value=0.0089  Score=39.33  Aligned_cols=31  Identities=16%  Similarity=0.253  Sum_probs=26.1

Q ss_pred             eEEecCCCCCCCHHHHHHHHhccCccceEEec
Q 044301           37 ICYLSRIPPHMDPVKLRQILSQYGEIQRIYLA   68 (154)
Q Consensus        37 VIYlSrIPp~M~p~klR~llsqfGeI~RIyL~   68 (154)
                      -||++-+||..+.. ++++|++||+|-++.+-
T Consensus         6 wV~V~G~p~~~~~~-il~~F~~~G~I~~~~~~   36 (81)
T d1wwha1           6 WVTVFGFPQASASY-ILLQFAQYGNILKHVMS   36 (81)
T ss_dssp             EEEEECCCGGGHHH-HHHHHHTTSCEEEEEEC
T ss_pred             EEEEECCChHHHHH-HHHHHHhhhhhheEEec
Confidence            48999999999865 55679999999999764

>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=92.86  E-value=0.0019  Score=44.26  Aligned_cols=32  Identities=9%  Similarity=0.199  Sum_probs=27.2

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEecc
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~p   69 (154)
                      +||..++..+....|+++|++||+|.+|++.+
T Consensus        30 ~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~   61 (104)
T d1jmta_          30 VEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCD   61 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCCEEEEEECC
T ss_pred             HHhhhhhhhhhHHHHHHHhccCCCEEEEEeec
Confidence            56667777778889999999999999999964

>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=92.03  E-value=0.07  Score=36.64  Aligned_cols=53  Identities=21%  Similarity=0.311  Sum_probs=43.1

Q ss_pred             EEecCCCCCCCHHHHHHHHhccCccceEEeccCCCchhhhhhhhccccCCCCCCCcccccceeeeecc
Q 044301           38 CYLSRIPPHMDPVKLRQILSQYGEIQRIYLAPEDPSTRVLRKRENRKRDGGFQDQGFSEGYKQKVQQE  105 (154)
Q Consensus        38 IYlSrIPp~M~p~klR~llsqfGeI~RIyL~pEd~~~~~~rk~~~rkK~gg~k~~~FtEGWVEf~~k~  105 (154)
                      |-|-||||.|+...+.+.|+..|+++..|..+-+.+.               +...|+--|+.|.+.+
T Consensus         4 vVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~---------------~~~~~SRAYi~F~~~~   56 (91)
T d1uw4a_           4 VVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSL---------------YPHMYARAYINFKNQE   56 (91)
T ss_dssp             EEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSS---------------TTCCCEEEEEEESSSH
T ss_pred             EEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCC---------------CCCcceEEEEEeCCHH
Confidence            4578999999999999999999999999999876441               2357888888886543

>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=91.71  E-value=0.046  Score=36.96  Aligned_cols=35  Identities=6%  Similarity=-0.018  Sum_probs=28.8

Q ss_pred             cceEEecCCCCCCCH-----HHHHHHHhccCccceEEecc
Q 044301           35 RGICYLSRIPPHMDP-----VKLRQILSQYGEIQRIYLAP   69 (154)
Q Consensus        35 ~GVIYlSrIPp~M~p-----~klR~llsqfGeI~RIyL~p   69 (154)
                      .--+|++.|++....     ..|+.||++||.|-.+.+.+
T Consensus         5 ~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k   44 (104)
T d1weya_           5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK   44 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET
T ss_pred             CceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEec
Confidence            345999999997632     57999999999999998864

>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=82.39  E-value=0.4  Score=31.60  Aligned_cols=38  Identities=18%  Similarity=0.428  Sum_probs=28.6

Q ss_pred             CCcceEEecCC--CCCCCH---------HHHHHHHhccCccceEEeccC
Q 044301           33 DQRGICYLSRI--PPHMDP---------VKLRQILSQYGEIQRIYLAPE   70 (154)
Q Consensus        33 ~k~GVIYlSrI--Pp~M~p---------~klR~llsqfGeI~RIyL~pE   70 (154)
                      ...-||+|.++  |..+..         ..|+..|++||.|..|++...
T Consensus         6 ~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~   54 (99)
T d2dita1           6 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR   54 (99)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT
T ss_pred             CCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCC
Confidence            44568999998  554421         368899999999999988543