Citrus Sinensis ID: 028098

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210----
Protein Sequence
MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSGST
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccHHHHHHHHccccccEEEEEEEccccccccccccEEEEEEccHHHHHHHHHHHccccEEEcccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHccccccEEEEEEEccccccccccEEEEEEEcccHHHHHHHHHHHcccccEEcccccccccc
Coil and Loop (DISEMBL)
madgywrysdarqpqsalpslvskrprtdydvpsghelssyytrdddrgalrgmrdtdslgasYDRYLRSAqissysggqsarhmsggmpsrpvddprivgiggmdpgpsakdralglgggrsevplppdasstlfveglpsdcsrrevahifrpfvgyKEVRLVSkesrhpggdplilcfvdfvspahAATAMDALQVQskvvapnqyqsgst
Flexible Loop (DISEMBL)
madgywrysdarqpqsalpslvskrprtdydvpsghelssyytrdddrgalrGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSkvvapnqyqsgst
Low Complexity Region (SEG)
MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSGST
Disordered region (IsUnstruct)
**************************************************************************************************************************************LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ****************
Disordered Region (DISOPRED)
*ADGYW*******************************************************************************************************************************TLFVEGLPSDCSRREVAHIFRPFVGYKEVR************PLILCFVDFVSPAHAATAMDALQVQSKVV**********
Disordered Region (DISEMBL)
MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQI******************RPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA*********
Disordered Region (DISPRO)
********SD*****************TDYDVPSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA*********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSGST
Positional Conservation
no confident homologs detected

---

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	214	2.2.26 [Sep-21-2011]
Q9W6I1	200	RNA-binding protein with	yes	no	0.350	0.375	0.413	4e-05
Q9WVB0	197	RNA-binding protein with	yes	no	0.341	0.370	0.402	5e-05
Q93062	196	RNA-binding protein with	yes	no	0.322	0.352	0.421	0.0001
Q8VC52	206	RNA-binding protein with	no	no	0.271	0.281	0.476	0.0001
Q6ZRY4	209	RNA-binding protein with	no	no	0.271	0.277	0.461	0.0003
B8AM21	232	U2 small nuclear ribonucl	N/A	no	0.378	0.349	0.285	0.0003
Q10MR0	232	U2 small nuclear ribonucl	no	no	0.378	0.349	0.285	0.0003
Q9YGP5	196	RNA-binding protein with	N/A	no	0.271	0.295	0.446	0.0004
Q39244	250	U1 small nuclear ribonucl	no	no	0.336	0.288	0.304	0.0005

>sp|Q9W6I1|RBPMS_CHICK RNA-binding protein with multiple splicing OS=Gallus gallus GN=RBPMS PE=2 SV=1

 Score = 48.5 bits (114), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 36/87 (41%), Positives = 42/87 (48%), Gaps = 12/87 (13%)

Query: 112 KDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRH 171
           KD     GGG  E     +   TLFV GLP D   RE+  +FRPF GY E  L+   S+ 
Sbjct: 6   KDTEHTNGGGNVE-----EEVRTLFVSGLPVDIKPRELYLLFRPFKGY-EGSLIKLTSKQ 59

Query: 172 PGGDPLILCFVDFVSPAHAATAMDALQ 198
           P G      FV F S A A  A +AL 
Sbjct: 60  PVG------FVTFDSRAGAEAAKNALN 80

Acts as a coactivator of transcriptional activity. Binds RNA.
Gallus gallus (taxid: 9031)

>sp|Q9WVB0|RBPMS_MOUSE RNA-binding protein with multiple splicing OS=Mus musculus GN=Rbpms PE=2 SV=2

 Score = 47.8 bits (112), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 35/87 (40%), Positives = 43/87 (49%), Gaps = 14/87 (16%)

Query: 119 GGGR-------SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRH 171
           GGG+       SE  L  +   TLFV GLP D   RE+  +FRPF GY E  L+   S+ 
Sbjct: 3   GGGKAEKENTPSEANLQEEEVRTLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQ 61

Query: 172 PGGDPLILCFVDFVSPAHAATAMDALQ 198
           P G      FV F S + A  A +AL 
Sbjct: 62  PVG------FVSFDSRSEAEAAKNALN 82

Acts as a coactivator of transcriptional activity. Required to increase TGFB1/Smad-mediated transactivation. Acts through SMAD2, SMAD3 and SMAD4 to increase transcriptional activity. Increases phosphorylation of SMAD2 and SMAD3 on their C-terminal SSXS motif, possibly through recruitment of TGFBR1. Promotes the nuclear accumulation of SMAD2, SMAD3 and SMAD4 proteins. Binds to poly(A) RNA.

Mus musculus (taxid: 10090)

>sp|Q93062|RBPMS_HUMAN RNA-binding protein with multiple splicing OS=Homo sapiens GN=RBPMS PE=1 SV=1

 Score = 46.6 bits (109), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/76 (42%), Positives = 39/76 (51%), Gaps = 7/76 (9%)

Query: 123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV 182
           SE  L  +   TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV
Sbjct: 14  SEANLQEEEVRTLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FV 66

Query: 183 DFVSPAHAATAMDALQ 198
            F S + A  A +AL 
Sbjct: 67  SFDSRSEAEAAKNALN 82

Acts as a coactivator of transcriptional activity. Required to increase TGFB1/Smad-mediated transactivation. Acts through SMAD2, SMAD3 and SMAD4 to increase transcriptional activity. Increases phosphorylation of SMAD2 and SMAD3 on their C-terminal SSXS motif, possibly through recruitment of TGFBR1. Promotes the nuclear accumulation of SMAD2, SMAD3 and SMAD4 proteins. Binds to poly(A) RNA.

Homo sapiens (taxid: 9606)

>sp|Q8VC52|RBPS2_MOUSE RNA-binding protein with multiple splicing 2 OS=Mus musculus GN=Rbpms2 PE=1 SV=1

 Score = 46.6 bits (109), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/65 (47%), Positives = 35/65 (53%), Gaps = 7/65 (10%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TLFV GLP D   RE+  +FRPF GY E  L+   SR P G      FV F S A A  A
Sbjct: 26  TLFVSGLPVDIKPRELYLLFRPFKGY-EGSLIKLTSRQPVG------FVIFDSRAGAEAA 78

Query: 194 MDALQ 198
            +AL 
Sbjct: 79  KNALN 83

Mus musculus (taxid: 10090)

>sp|Q6ZRY4|RBPS2_HUMAN RNA-binding protein with multiple splicing 2 OS=Homo sapiens GN=RBPMS2 PE=2 SV=1

 Score = 45.4 bits (106), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/65 (46%), Positives = 35/65 (53%), Gaps = 7/65 (10%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TLFV GLP D   RE+  +FRPF GY E  L+   +R P G      FV F S A A  A
Sbjct: 32  TLFVSGLPVDIKPRELYLLFRPFKGY-EGSLIKLTARQPVG------FVIFDSRAGAEAA 84

Query: 194 MDALQ 198
            +AL 
Sbjct: 85  KNALN 89

Homo sapiens (taxid: 9606)

>sp|B8AM21|RU2B_ORYSI U2 small nuclear ribonucleoprotein B'' OS=Oryza sativa subsp. indica GN=OsI_11177 PE=3 SV=1

 Score = 45.4 bits (106), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/98 (28%), Positives = 52/98 (53%), Gaps = 17/98 (17%)

Query: 108 GPSAKDRALG-------LGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYK 160
           GP+A  ++ G       LG    E P PP+  + LF++ LP++ +   +  +F+ + G++
Sbjct: 128 GPNAAAQSNGTGYQASRLGKTSQEPPAPPN--NILFIQNLPAETTSMMLQILFQQYPGFR 185

Query: 161 EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ 198
           EVR++  +   PG     + FV++   + +  AM ALQ
Sbjct: 186 EVRMIEAK---PG-----IAFVEYEDDSQSMVAMQALQ 215

Involved in nuclear pre-mRNA splicing.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q10MR0|RU2B_ORYSJ U2 small nuclear ribonucleoprotein B'' OS=Oryza sativa subsp. japonica GN=Os03g0298800 PE=2 SV=1

 Score = 45.4 bits (106), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/98 (28%), Positives = 52/98 (53%), Gaps = 17/98 (17%)

Query: 108 GPSAKDRALG-------LGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYK 160
           GP+A  ++ G       LG    E P PP+  + LF++ LP++ +   +  +F+ + G++
Sbjct: 128 GPNAAAQSNGTGYQASRLGKTSQEPPAPPN--NILFIQNLPAETTSMMLQILFQQYPGFR 185

Query: 161 EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ 198
           EVR++  +   PG     + FV++   + +  AM ALQ
Sbjct: 186 EVRMIEAK---PG-----IAFVEYEDDSQSMVAMQALQ 215

Involved in nuclear pre-mRNA splicing.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9YGP5|RBPMS_XENLA RNA-binding protein with multiple splicing OS=Xenopus laevis GN=rbpms PE=2 SV=1

 Score = 45.1 bits (105), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 29/65 (44%), Positives = 35/65 (53%), Gaps = 7/65 (10%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV F + A A  A
Sbjct: 21  TLFVSGLPIDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FVTFDNRAGAEAA 73

Query: 194 MDALQ 198
            +AL 
Sbjct: 74  KNALN 78

Acts as a coactivator of transcriptional activity. Binds RNA.

Xenopus laevis (taxid: 8355)

>sp|Q39244|RU1A_ARATH U1 small nuclear ribonucleoprotein A OS=Arabidopsis thaliana GN=U1A PE=1 SV=1

 Score = 44.7 bits (104), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 10/82 (12%)

Query: 117 GLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDP 176
           G+     E P PP+  + LFV+ LP + +   +  +F  + G+KEVR++  +   PG   
Sbjct: 163 GMKPNMPEAPAPPN--NILFVQNLPHETTPMVLQMLFCQYQGFKEVRMIEAK---PG--- 214

Query: 177 LILCFVDFVSPAHAATAMDALQ 198
             + FV+F     +  AM  LQ
Sbjct: 215 --IAFVEFADEMQSTVAMQGLQ 234

Involved in nuclear pre-mRNA splicing (By similarity). Seems to not be involved in polyadenylation.

Arabidopsis thaliana (taxid: 3702)

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	214
255549562	232	nucleic acid binding protein, putative [	0.920	0.849	0.819	5e-87
427199356	233	RNA-binding protein with multiple splici	0.925	0.849	0.798	5e-87
224118350	233	predicted protein [Populus trichocarpa]	0.920	0.845	0.77	2e-80
302143942	230	unnamed protein product [Vitis vinifera]	0.915	0.852	0.717	1e-76
359490723	229	PREDICTED: uncharacterized protein LOC10	0.911	0.851	0.712	2e-74
224135091	220	predicted protein [Populus trichocarpa]	0.864	0.840	0.738	3e-74
363807818	230	uncharacterized protein LOC100786188 [Gl	0.915	0.852	0.661	1e-69
363818125	230	uncharacterized protein LOC100800440 [Gl	0.915	0.852	0.656	8e-69
449456997	232	PREDICTED: uncharacterized protein LOC10	0.920	0.849	0.648	5e-68
388505956	232	unknown [Lotus japonicus]	0.911	0.840	0.653	5e-67

>gi|255549562|ref|XP_002515833.1| nucleic acid binding protein, putative [Ricinus communis] gi|223545062|gb|EEF46575.1| nucleic acid binding protein, putative [Ricinus communis]

 Score =  326 bits (835), Expect = 5e-87,   Method: Compositional matrix adjust.
 Identities = 163/199 (81%), Positives = 178/199 (89%), Gaps = 2/199 (1%)

Query: 1   MADGYWRYSDARQPQSA-LPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDS 59
           MAD YWRYSDARQPQ   +P+LV KR R+DYDV SGHEL +YYTRDDDRGALR +RDTDS
Sbjct: 1   MADAYWRYSDARQPQQQPIPTLVGKRSRSDYDVTSGHELPNYYTRDDDRGALRAIRDTDS 60

Query: 60  LGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLG 119
           +GASYDRYLRSA ISSYSGGQSAR +SG +P+R  DDPRI+GIGG+DPGP+ KDR LGLG
Sbjct: 61  IGASYDRYLRSAPISSYSGGQSARPISG-VPNRVADDPRIMGIGGLDPGPTVKDRTLGLG 119

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
            GR E  LPPDA+STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESR PGGDPL+L
Sbjct: 120 SGRPETSLPPDATSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRRPGGDPLVL 179

Query: 180 CFVDFVSPAHAATAMDALQ 198
           CFVDF+SPAHAATAMDALQ
Sbjct: 180 CFVDFLSPAHAATAMDALQ 198

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|427199356|gb|AFY26894.1| RNA-binding protein with multiple splicing [Morella rubra]

 Score =  326 bits (835), Expect = 5e-87,   Method: Compositional matrix adjust.
 Identities = 159/199 (79%), Positives = 177/199 (88%), Gaps = 1/199 (0%)

Query: 1   MADGYWRYSDARQPQ-SALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDS 59
           MAD YWRY D+RQP   +L  +V KR R+DYDVPSGHEL SY++RDD+RG LRGMRDTDS
Sbjct: 1   MADAYWRYGDSRQPPPQSLTQIVGKRSRSDYDVPSGHELPSYFSRDDERGTLRGMRDTDS 60

Query: 60  LGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLG 119
           +GASYDRYLRSAQ+SSY GGQSAR +SGGM SR VDDPRIVG+G ++P  + KDR LG G
Sbjct: 61  IGASYDRYLRSAQVSSYGGGQSARPISGGMSSRAVDDPRIVGMGSVEPATTVKDRTLGYG 120

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
           GGR EVPLPPDASSTLFVEGLPS+C+RREVAHIFRPFVGYKEVRLVSKESRHPGGDPL+L
Sbjct: 121 GGRPEVPLPPDASSTLFVEGLPSNCTRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLVL 180

Query: 180 CFVDFVSPAHAATAMDALQ 198
           CFVDF+SPAHAATAMDALQ
Sbjct: 181 CFVDFLSPAHAATAMDALQ 199

Source: Morella rubra

Species: Morella rubra

Genus: Morella

Family: Myricaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118350|ref|XP_002317797.1| predicted protein [Populus trichocarpa] gi|222858470|gb|EEE96017.1| predicted protein [Populus trichocarpa]

 Score =  304 bits (778), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 154/200 (77%), Positives = 174/200 (87%), Gaps = 3/200 (1%)

Query: 1   MADGYWRYS-DARQ-PQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTD 58
           MAD YWRY+ D+RQ P  ++ SL  KRPR DYD+PSG +LSSYY+RDDDRGAL  +RD+D
Sbjct: 1   MADSYWRYAGDSRQQPPQSMSSLTGKRPRIDYDIPSGRDLSSYYSRDDDRGALHVIRDSD 60

Query: 59  SLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGL 118
           S+GASYDRYLRS  +SSY GGQSAR MSG +PS PVDD R+V +G MDPG S KDR+L +
Sbjct: 61  SIGASYDRYLRSGTVSSYGGGQSARAMSG-VPSHPVDDTRMVSMGPMDPGASVKDRSLRM 119

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLI 178
           G GRSEV LPPDASSTLFVEGLPSDC+RREV+HIFRPFVGYKEVRLVSKESRHPGGDPL+
Sbjct: 120 GSGRSEVSLPPDASSTLFVEGLPSDCTRREVSHIFRPFVGYKEVRLVSKESRHPGGDPLV 179

Query: 179 LCFVDFVSPAHAATAMDALQ 198
           LCFVDF+SPAHAATAMDALQ
Sbjct: 180 LCFVDFLSPAHAATAMDALQ 199

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143942|emb|CBI23047.3| unnamed protein product [Vitis vinifera]

 Score =  291 bits (744), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 142/198 (71%), Positives = 170/198 (85%), Gaps = 2/198 (1%)

Query: 1   MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSL 60
           MAD YWRY + RQP   +PSL +KRPR+DYDVP GH+L SY++R+D+R A R +RD+DS+
Sbjct: 1   MADPYWRYGEVRQP-PPIPSLSAKRPRSDYDVPGGHDLPSYFSREDERAAHRSIRDSDSI 59

Query: 61  GASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGG 120
           GASYDRYLR+AQ+ SY GG S R +SGG+ S PVDDPR+VG+ G+D G + K ++LG  G
Sbjct: 60  GASYDRYLRNAQMPSY-GGDSGRPLSGGITSHPVDDPRVVGVRGVDQGATVKSQSLGFSG 118

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           GR E+PLPPDASSTLFVEGLP++C+RREV+HIFRPFVGYKEVRLVSKESRH GGDPL+LC
Sbjct: 119 GRPELPLPPDASSTLFVEGLPANCTRREVSHIFRPFVGYKEVRLVSKESRHSGGDPLVLC 178

Query: 181 FVDFVSPAHAATAMDALQ 198
           FVDFVSPAHAATAMDALQ
Sbjct: 179 FVDFVSPAHAATAMDALQ 196

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490723|ref|XP_002275189.2| PREDICTED: uncharacterized protein LOC100265772 [Vitis vinifera]

 Score =  284 bits (726), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 141/198 (71%), Positives = 169/198 (85%), Gaps = 3/198 (1%)

Query: 1   MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSL 60
           MAD YWRY + RQP   +PSL +KRPR+DYDVP GH+L SY++R+D+R A R +RD+DS+
Sbjct: 1   MADPYWRYGEVRQP-PPIPSLSAKRPRSDYDVPGGHDLPSYFSREDERAAHRSIRDSDSI 59

Query: 61  GASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGG 120
           GASYDRYLR+A + SY GG S R +SGG+ S PVDDPR+VG+ G+D G + K ++LG  G
Sbjct: 60  GASYDRYLRNA-MPSY-GGDSGRPLSGGITSHPVDDPRVVGVRGVDQGATVKSQSLGFSG 117

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           GR E+PLPPDASSTLFVEGLP++C+RREV+HIFRPFVGYKEVRLVSKESRH GGDPL+LC
Sbjct: 118 GRPELPLPPDASSTLFVEGLPANCTRREVSHIFRPFVGYKEVRLVSKESRHSGGDPLVLC 177

Query: 181 FVDFVSPAHAATAMDALQ 198
           FVDFVSPAHAATAMDALQ
Sbjct: 178 FVDFVSPAHAATAMDALQ 195

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135091|ref|XP_002321981.1| predicted protein [Populus trichocarpa] gi|222868977|gb|EEF06108.1| predicted protein [Populus trichocarpa]

 Score =  283 bits (725), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 147/199 (73%), Positives = 165/199 (82%), Gaps = 14/199 (7%)

Query: 1   MADGYWRYS-DARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDS 59
           MAD YWRY+ D+RQPQ  L            DVPSG +LSSYY+RDDDRGALR +RD+DS
Sbjct: 1   MADSYWRYAGDSRQPQPHL------------DVPSGRDLSSYYSRDDDRGALRVIRDSDS 48

Query: 60  LGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLG 119
           +GASYDRYL S  ISSY GGQSAR +SG +P RPVDD R+V +G MDPG S KDR++  G
Sbjct: 49  IGASYDRYLHSGTISSYGGGQSARAISG-VPVRPVDDLRMVSMGSMDPGSSVKDRSMRTG 107

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
            GRSEV LPPDASSTLFVEGLPSDC+RREV+HIFRPFVGYKEVRLVSKESRHPGGDPL+L
Sbjct: 108 SGRSEVSLPPDASSTLFVEGLPSDCTRREVSHIFRPFVGYKEVRLVSKESRHPGGDPLVL 167

Query: 180 CFVDFVSPAHAATAMDALQ 198
           CFVDF+SPAHAAT+MDALQ
Sbjct: 168 CFVDFLSPAHAATSMDALQ 186

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807818|ref|NP_001241926.1| uncharacterized protein LOC100786188 [Glycine max] gi|255640386|gb|ACU20480.1| unknown [Glycine max]

 Score =  268 bits (684), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 131/198 (66%), Positives = 158/198 (79%), Gaps = 2/198 (1%)

Query: 1   MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSL 60
           M+D YWRY  A + + A  S+  KR R+DYDV   H+L SY+  DDDRG LR +RDT+SL
Sbjct: 1   MSDAYWRY--AAESRQAPSSIAGKRSRSDYDVSGVHDLPSYFPHDDDRGGLRVIRDTESL 58

Query: 61  GASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGG 120
            ASY+RYLRSAQ+SSY  GQS R + G +P+R +DD  +  IGG+D G +AKD+  GL  
Sbjct: 59  DASYERYLRSAQVSSYGSGQSTRTIDGRIPNRAIDDSHVANIGGVDRGTNAKDKMPGLSS 118

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           GR++  LPPDA+STLFVEGLPS+C+RREVAHIFRPFVGYKEVRLVSKESR PGGDPL+LC
Sbjct: 119 GRADHSLPPDATSTLFVEGLPSNCTRREVAHIFRPFVGYKEVRLVSKESRQPGGDPLVLC 178

Query: 181 FVDFVSPAHAATAMDALQ 198
           FVDF+SPAHAATAM+ALQ
Sbjct: 179 FVDFMSPAHAATAMEALQ 196

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363818125|ref|NP_001242627.1| uncharacterized protein LOC100800440 [Glycine max] gi|255644702|gb|ACU22853.1| unknown [Glycine max]

 Score =  265 bits (678), Expect = 8e-69,   Method: Compositional matrix adjust.
 Identities = 130/198 (65%), Positives = 157/198 (79%), Gaps = 2/198 (1%)

Query: 1   MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSL 60
           M+D YWRY  A + + A  S+  KR R+DYDV   H+L  Y+  DDDRG LR +RDT+SL
Sbjct: 1   MSDAYWRY--AAESRQAPSSIAGKRSRSDYDVSGVHDLPGYFPHDDDRGGLRVIRDTESL 58

Query: 61  GASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGG 120
            ASY+RYLRSAQ+SSY  GQS R +SG +P+R +DD  +  IGG+D G +AKD+ LGL  
Sbjct: 59  DASYERYLRSAQVSSYGSGQSTRTISGRIPNRAIDDSHVANIGGIDRGTNAKDKMLGLSS 118

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           GR++  LPPDA+STLFVEGLP +C+RREVAHIF PFVGYKEVRLVSKESR PGGDPL+LC
Sbjct: 119 GRTDHSLPPDATSTLFVEGLPPNCTRREVAHIFPPFVGYKEVRLVSKESRQPGGDPLVLC 178

Query: 181 FVDFVSPAHAATAMDALQ 198
           FVDF+SPAHAATAM+ALQ
Sbjct: 179 FVDFLSPAHAATAMEALQ 196

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449456997|ref|XP_004146235.1| PREDICTED: uncharacterized protein LOC101218789 [Cucumis sativus] gi|449529543|ref|XP_004171759.1| PREDICTED: uncharacterized protein LOC101224897 [Cucumis sativus]

 Score =  263 bits (671), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 129/199 (64%), Positives = 159/199 (79%), Gaps = 2/199 (1%)

Query: 1   MADGYWRYSDARQ-PQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDS 59
           M+D YWRY+D++Q P S++P +V KRPR DYD    HEL +YY R DDR  L+G++  DS
Sbjct: 1   MSDAYWRYTDSQQQPPSSVPPVVGKRPRVDYDTSGLHELPNYYPRQDDRPVLQGIKSVDS 60

Query: 60  LGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLG 119
           +  SY+RYLR++QISSY GGQSAR + GG+P  P++DP I+G+GG+  G +  DR+   G
Sbjct: 61  INESYERYLRTSQISSY-GGQSARPVGGGVPGHPMNDPPILGLGGVVSGANVNDRSTSFG 119

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
           GGR  +PLPPDAS+TLFVEGLPS C+RREVAHIFRPFVGYKEVRLV+KESR  G DP++L
Sbjct: 120 GGRPNMPLPPDASNTLFVEGLPSSCTRREVAHIFRPFVGYKEVRLVNKESRSAGRDPVVL 179

Query: 180 CFVDFVSPAHAATAMDALQ 198
            FVDFVSPAHAATAMDALQ
Sbjct: 180 GFVDFVSPAHAATAMDALQ 198

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388505956|gb|AFK41044.1| unknown [Lotus japonicus]

 Score =  259 bits (662), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 130/199 (65%), Positives = 155/199 (77%), Gaps = 4/199 (2%)

Query: 1   MADGYWRYS-DARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDS 59
           M+D YWRY+ ++R   SA+    +KR R+DYDV   H++  YY  DDDRG LR +RDT+S
Sbjct: 1   MSDAYWRYAAESRHNPSAI---AAKRARSDYDVSGVHDMPGYYPHDDDRGGLRVIRDTES 57

Query: 60  LGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLG 119
           L ASY+RYLRSAQ+SS+  GQS R + G +PS   DD  +  IGG+D GPSAK++ LGL 
Sbjct: 58  LDASYERYLRSAQVSSFGEGQSTRTIRGRLPSHSFDDSHVTSIGGVDRGPSAKEKILGLS 117

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
            GR +  LPPDA+STLFVEGLP++C RREVAHIFRPFVGYKEVRLVSKESR PGGDPL+L
Sbjct: 118 SGRPDHSLPPDATSTLFVEGLPTNCPRREVAHIFRPFVGYKEVRLVSKESRQPGGDPLVL 177

Query: 180 CFVDFVSPAHAATAMDALQ 198
           CFVDF SPAHAATA DALQ
Sbjct: 178 CFVDFESPAHAATAKDALQ 196

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

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	214
TAIR|locus:2025232	233	AT1G76940 [Arabidopsis thalian	0.869	0.798	0.492	6.8e-40
TAIR|locus:2014937	421	AT1G21320 [Arabidopsis thalian	0.794	0.403	0.481	7e-38
UNIPROTKB|F5H357	153	RBPMS "RNA-binding protein wit	0.317	0.444	0.426	4.8e-06
RGD|1561067	110	Rbpms "RNA binding protein wit	0.266	0.518	0.453	1.5e-05
DICTYBASE|DDB_G0268988	356	DDB_G0268988 "RNA-binding regi	0.813	0.488	0.270	5.5e-05
UNIPROTKB|H0YBU9	119	RBPMS "RNA-binding protein wit	0.261	0.470	0.444	5.6e-05
UNIPROTKB|Q93062	196	RBPMS "RNA-binding protein wit	0.317	0.346	0.426	0.00011
MGI|MGI:1334446	197	Rbpms "RNA binding protein gen	0.317	0.345	0.426	0.00011
UNIPROTKB|E2R5F7	219	RBPMS "Uncharacterized protein	0.317	0.310	0.426	0.00016
UNIPROTKB|B4E3T4	224	RBPMS "HCG2043421, isoform CRA	0.317	0.303	0.426	0.00018

TAIR|locus:2025232 AT1G76940 [Arabidopsis thaliana (taxid:3702)]

 Score = 425 (154.7 bits), Expect = 6.8e-40, P = 6.8e-40
 Identities = 105/213 (49%), Positives = 135/213 (63%)

Query:     1 MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPS-----GHELSSYYTRDDDRGALRGMR 55
             MADGYW  +  RQ Q   P    KRPR+D++ PS     GH    YY RD+D      + 
Sbjct:     1 MADGYW--NQQRQ-QHHPPGGPMKRPRSDFEAPSSTMTIGHG-GGYYPRDEDLD----VP 52

Query:    56 DTDSLGASYDRYLRSAQIS---SYSGGQSARHMSGGMPS-RPVDD--PRIVGIGGMDPGP 109
             DT ++G++YDRYL+S Q     S S G+S     GG  + + +DD   R  G+  +D GP
Sbjct:    53 DTRTIGSAYDRYLQSVQSGEGGSVSMGRSGGGGGGGGGNVQTIDDFMLRRGGVLPLDHGP 112

Query:   110 SAKDRALGLGG----GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV 165
             +     +G       GR    LP DAS+TL+VEGLPS+CSRREVAHIFRPFVGY+EVRLV
Sbjct:   113 NG--HTIGFDPPEPVGRRN--LPSDASNTLYVEGLPSNCSRREVAHIFRPFVGYREVRLV 168

Query:   166 SKESRHPGGDPLILCFVDFVSPAHAATAMDALQ 198
             +K+S+H  GDP++LCFVDF +PA AATA+ ALQ
Sbjct:   169 TKDSKHRNGDPIVLCFVDFTNPACAATALSALQ 201

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2014937 AT1G21320 [Arabidopsis thaliana (taxid:3702)]

 Score = 406 (148.0 bits), Expect = 7.0e-38, P = 7.0e-38
 Identities = 90/187 (48%), Positives = 121/187 (64%)

Query:    28 TDYDVPSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQ---ISS-----YSGG 79
             T Y +PSG ++ SY ++D+DRG    ++DT S+G++YDRYL+S Q   + S     ++G 
Sbjct:   203 TPYLIPSG-DMHSYLSQDEDRGIPHSVKDTRSIGSAYDRYLQSMQTFFVPSEEAGPFNGV 261

Query:    80 QSARHMSGGMPSRPVDDPRIVGIGGMDPG---PSAKDRALG----LGG-GRSEVPLPPDA 131
                R     M   P     + G GG  P    P+ +D   G    +G  GR   PLPPD 
Sbjct:   262 GMVRQGGSNMMPGPSMGELMAGCGGSLPSDFRPNGRDMGFGQLDSVGRPGREPHPLPPDV 321

Query:   132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
             S+TL+VEGLPS+CSRREV+HIFRPFVGY+EVRLV+++S+H  GDP +LCFVDF + A AA
Sbjct:   322 SNTLYVEGLPSNCSRREVSHIFRPFVGYREVRLVTQDSKHRSGDPTVLCFVDFENSACAA 381

Query:   192 TAMDALQ 198
             TA+ ALQ
Sbjct:   382 TALSALQ 388

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|F5H357 RBPMS "RNA-binding protein with multiple-splicing" [Homo sapiens (taxid:9606)]

 Score = 111 (44.1 bits), Expect = 4.8e-06, P = 4.8e-06
 Identities = 32/75 (42%), Positives = 39/75 (52%)

Query:   123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV 182
             SE  L  +   TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV
Sbjct:    14 SEANLQEEEVRTLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FV 66

Query:   183 DFVSPAHAATAMDAL 197
              F S + A  A +AL
Sbjct:    67 SFDSRSEAEAAKNAL 81

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

RGD|1561067 Rbpms "RNA binding protein with multiple splicing" [Rattus norvegicus (taxid:10116)]

 Score = 104 (41.7 bits), Expect = 1.5e-05, P = 1.5e-05
 Identities = 29/64 (45%), Positives = 35/64 (54%)

Query:   134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
             TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV F S + A  A
Sbjct:     3 TLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FVSFDSRSEAEAA 55

Query:   194 MDAL 197
              +AL
Sbjct:    56 KNAL 59

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA;ISO

GO:0008143 "poly(A) RNA binding" evidence=IEA;ISO

GO:0010862 "positive regulation of pathway-restricted SMAD protein phosphorylation" evidence=IEA;ISO

GO:0060391 "positive regulation of SMAD protein import into nucleus" evidence=IEA;ISO

DICTYBASE|DDB_G0268988 DDB_G0268988 "RNA-binding region RNP-1 domain-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 119 (46.9 bits), Expect = 5.5e-05, P = 5.5e-05
 Identities = 55/203 (27%), Positives = 87/203 (42%)

Query:     8 YSD--ARQPQSALP-SLVSKRPRTDYDVPSGHELSSYYTRDDDR-GALRGMRDTDSLGAS 63
             Y D  ++   S+ P S  S  P +   +PS +       R +D          + SL +S
Sbjct:   146 YKDRTSKSSSSSPPYSSSSSSPLSSSPLPSHYYQDRKRIRSEDYYPRSSSSSSSSSLYSS 205

Query:    64 YDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRS 123
              DRY       SY    S+   S  +P+  +  P       + P  ++   +   GG   
Sbjct:   206 SDRYH-----DSYRSTPSSSSSSYLIPTSSI--PLSSSNYHLPPSSTSLSSSHYHGGSA- 257

Query:   124 EVPLPPDAS--------STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGD 175
                LPP +S        STLFV  LP D + RE++ +FR   G+  +RL++KE + P   
Sbjct:   258 ---LPPQSSISTTGMPCSTLFVSNLPKDVTERELSILFRFMRGFVGIRLINKEGKLP--- 311

Query:   176 PLILCFVDFVSPAHAATAMDALQ 198
                +CF DF+    +  A++ LQ
Sbjct:   312 ---MCFCDFIDTQSSMFALEFLQ 331

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0044351 "macropinocytosis" evidence=RCA

UNIPROTKB|H0YBU9 RBPMS "RNA-binding protein with multiple-splicing" [Homo sapiens (taxid:9606)]

 Score = 99 (39.9 bits), Expect = 5.6e-05, P = 5.6e-05
 Identities = 28/63 (44%), Positives = 34/63 (53%)

Query:   135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
             LFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV F S + A  A 
Sbjct:     2 LFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FVSFDSRSEAEAAK 54

Query:   195 DAL 197
             +AL
Sbjct:    55 NAL 57

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|Q93062 RBPMS "RNA-binding protein with multiple splicing" [Homo sapiens (taxid:9606)]

 Score = 111 (44.1 bits), Expect = 0.00011, P = 0.00011
 Identities = 32/75 (42%), Positives = 39/75 (52%)

Query:   123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV 182
             SE  L  +   TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV
Sbjct:    14 SEANLQEEEVRTLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FV 66

Query:   183 DFVSPAHAATAMDAL 197
              F S + A  A +AL
Sbjct:    67 SFDSRSEAEAAKNAL 81

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0003713 "transcription coactivator activity" evidence=IDA

GO:0010862 "positive regulation of pathway-restricted SMAD protein phosphorylation" evidence=IDA

GO:0060391 "positive regulation of SMAD protein import into nucleus" evidence=IDA

GO:0008143 "poly(A) RNA binding" evidence=IDA

GO:0006396 "RNA processing" evidence=TAS

MGI|MGI:1334446 Rbpms "RNA binding protein gene with multiple splicing" [Mus musculus (taxid:10090)]

 Score = 111 (44.1 bits), Expect = 0.00011, P = 0.00011
 Identities = 32/75 (42%), Positives = 39/75 (52%)

Query:   123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV 182
             SE  L  +   TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV
Sbjct:    14 SEANLQEEEVRTLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FV 66

Query:   183 DFVSPAHAATAMDAL 197
              F S + A  A +AL
Sbjct:    67 SFDSRSEAEAAKNAL 81

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=ISO

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0008143 "poly(A) RNA binding" evidence=ISO

GO:0010862 "positive regulation of pathway-restricted SMAD protein phosphorylation" evidence=ISO

GO:0060391 "positive regulation of SMAD protein import into nucleus" evidence=ISO

UNIPROTKB|E2R5F7 RBPMS "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 111 (44.1 bits), Expect = 0.00016, P = 0.00016
 Identities = 32/75 (42%), Positives = 39/75 (52%)

Query:   123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV 182
             SE  L  +   TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV
Sbjct:    14 SEANLQEEEVRTLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FV 66

Query:   183 DFVSPAHAATAMDAL 197
              F S + A  A +AL
Sbjct:    67 SFDSRSEAEAAKNAL 81

GO:0060391 "positive regulation of SMAD protein import into nucleus" evidence=IEA

GO:0010862 "positive regulation of pathway-restricted SMAD protein phosphorylation" evidence=IEA

GO:0008143 "poly(A) RNA binding" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|B4E3T4 RBPMS "HCG2043421, isoform CRA_c" [Homo sapiens (taxid:9606)]

 Score = 111 (44.1 bits), Expect = 0.00018, P = 0.00018
 Identities = 32/75 (42%), Positives = 39/75 (52%)

Query:   123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV 182
             SE  L  +   TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV
Sbjct:    14 SEANLQEEEVRTLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FV 66

Query:   183 DFVSPAHAATAMDAL 197
              F S + A  A +AL
Sbjct:    67 SFDSRSEAEAAKNAL 81

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid 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

Your Input: estExt_Genewise1_v1.C_LG_XII1492 hypothetical protein (233 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	214
cd12420	79	cd12420, RRM_RBPMS_like, RNA recognition motif in	7e-29
cd12247	72	cd12247, RRM2_U1A_like, RNA recognition motif 2 in	4e-14
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	1e-10
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	2e-09
smart00360	73	smart00360, RRM, RNA recognition motif	7e-09
cd12245	79	cd12245, RRM_scw1_like, RNA recognition motif in y	8e-09
cd12320	76	cd12320, RRM6_RBM19_RRM5_MRD1, RNA recognition mot	9e-09
cd12392	81	cd12392, RRM2_SART3, RNA recognition motif 2 in sq	5e-07
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	6e-07
cd12571	79	cd12571, RRM6_RBM19, RNA recognition motif 6 in RN	6e-07
cd12683	76	cd12683, RRM_RBPMS2, RNA recognition motif in vert	1e-06
cd12481	80	cd12481, RRM2_U2B, RNA recognition motif 2 found i	2e-06
cd12682	76	cd12682, RRM_RBPMS, RNA recognition motif in verte	3e-06
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	5e-06
cd12480	80	cd12480, RRM2_U1A, RNA recognition motif 2 found i	9e-06
cd12479	80	cd12479, RRM2_SNF, RNA recognition motif 2 found i	2e-05
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	1e-04
cd12570	76	cd12570, RRM5_MRD1, RNA recognition motif 5 in yea	2e-04
cd12318	82	cd12318, RRM5_RBM19_like, RNA recognition motif 5	2e-04
cd12684	83	cd12684, RRM_cpo, RNA recognition motif in Drosoph	4e-04
cd12340	67	cd12340, RBD_RRM1_NPL3, RNA recognition motif 1 in	0.001
cd12313	84	cd12313, RRM1_RRM2_RBM5_like, RNA recognition moti	0.001
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	0.001
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	0.003
cd12567	79	cd12567, RRM3_RBM19, RNA recognition motif 3 in RN	0.004

>gnl|CDD|240866 cd12420, RRM_RBPMS_like, RNA recognition motif in RNA-binding protein with multiple splicing (RBP-MS)-like proteins

 Score =  103 bits (258), Expect = 7e-29
 Identities = 39/66 (59%), Positives = 44/66 (66%), Gaps = 2/66 (3%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAAT 192
            TLFV GLPSD   RE+AH+FRPF GY+  RLV KE    GG+   + FVDF S   AA 
Sbjct: 1   RTLFVSGLPSDVKERELAHLFRPFPGYEASRLVFKE--KKGGEKQPVGFVDFSSAQCAAA 58

Query: 193 AMDALQ 198
           AMDALQ
Sbjct: 59  AMDALQ 64

This subfamily corresponds to the RRM of RNA-binding proteins with multiple splicing (RBP-MS)-like proteins, including protein products of RBPMS genes (RBP-MS and its paralogue RBP-MS2), the Drosophila couch potato (cpo), and Caenorhabditis elegans Mec-8 genes. RBP-MS may be involved in regulation of mRNA translation and localization during Xenopus laevis development. It has also been shown to physically interact with Smad2, Smad3 and Smad4, and stimulates Smad-mediated transactivation. Cpo may play an important role in regulating normal function of the nervous system, whereas mutations in Mec-8 affect mechanosensory and chemosensory neuronal function. All members contain a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). Some uncharacterized family members contain two RRMs; this subfamily includes their RRM1. Their RRM2 shows high sequence homology to the RRM of yeast proteins scw1, Whi3, and Whi4. Length = 79

>gnl|CDD|240693 cd12247, RRM2_U1A_like, RNA recognition motif 2 in the U1A/U2B"/SNF protein family

 Score = 64.5 bits (158), Expect = 4e-14
 Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 9/67 (13%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           +  LF++ LP + ++  +  +F  F G+KEVRLV +     G     + FV+F +   A 
Sbjct: 2   NKILFLQNLPEETTKEMLEMLFNQFPGFKEVRLVPR----RG-----IAFVEFETEEQAT 52

Query: 192 TAMDALQ 198
            A+ ALQ
Sbjct: 53  VALQALQ 59

This subfamily corresponds to the RRM2 of U1A/U2B"/SNF protein family, containing Drosophila sex determination protein SNF and its two mammalian counterparts, U1 small nuclear ribonucleoprotein A (U1 snRNP A or U1-A or U1A) and U2 small nuclear ribonucleoprotein B" (U2 snRNP B" or U2B"), all of which consist of two RNA recognition motifs (RRMs) connected by a variable, flexible linker. SNF is an RNA-binding protein found in the U1 and U2 snRNPs of Drosophila where it is essential in sex determination and possesses a novel dual RNA binding specificity. SNF binds with high affinity to both Drosophila U1 snRNA stem-loop II (SLII) and U2 snRNA stem-loop IV (SLIV). It can also bind to poly(U) RNA tracts flanking the alternatively spliced Sex-lethal (Sxl) exon, as does Drosophila Sex-lethal protein (SXL). U1A is an RNA-binding protein associated with the U1 snRNP, a small RNA-protein complex involved in pre-mRNA splicing. U1A binds with high affinity and specificity to stem-loop II (SLII) of U1 snRNA. It is predominantly a nuclear protein that shuttles between the nucleus and the cytoplasm independently of interactions with U1 snRNA. Moreover, U1A may be involved in RNA 3'-end processing, specifically cleavage, splicing and polyadenylation, through interacting with a large number of non-snRNP proteins. U2B", initially identified to bind to stem-loop IV (SLIV) at the 3' end of U2 snRNA, is a unique protein that comprises of the U2 snRNP. Additional research indicates U2B" binds to U1 snRNA stem-loop II (SLII) as well and shows no preference for SLIV or SLII on the basis of binding affinity. U2B" does not require an auxiliary protein for binding to RNA and its nuclear transport is independent on U2 snRNA binding. . Length = 72

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

 Score = 55.4 bits (134), Expect = 1e-10
 Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 4/64 (6%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           LFV  LP D +  ++  +F  F   + VR+V  +     G      FV+F SP  A  A+
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKG----FAFVEFESPEDAEKAL 56

Query: 195 DALQ 198
           +AL 
Sbjct: 57  EALN 60

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|215696 pfam00076, RRM_1, RNA recognition motif

 Score = 51.8 bits (125), Expect = 2e-09
 Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 4/64 (6%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           LFV  LP D +  ++  +F  F   + +R+V  E+    G      FV+F     A  A+
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKG----FAFVEFEDEEDAEKAL 56

Query: 195 DALQ 198
           +AL 
Sbjct: 57  EALN 60

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

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

 Score = 50.3 bits (121), Expect = 7e-09
 Identities = 25/66 (37%), Positives = 33/66 (50%), Gaps = 5/66 (7%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHAAT 192
           TLFV  LP D +  E+  +F  F   + VRLV  KE+    G      FV+F S   A  
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKG----FAFVEFESEEDAEK 56

Query: 193 AMDALQ 198
           A++AL 
Sbjct: 57  ALEALN 62

Length = 73

>gnl|CDD|240691 cd12245, RRM_scw1_like, RNA recognition motif in yeast cell wall integrity protein scw1 and similar proteins

 Score = 50.3 bits (121), Expect = 8e-09
 Identities = 20/66 (30%), Positives = 37/66 (56%), Gaps = 7/66 (10%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAAT 192
           +TLFV  L  + +  E+  +F    G++ +++ +K     GG P  +CFV+F   + A  
Sbjct: 3   NTLFVANLGPNTTEEELRQLFSRQPGFRRLKMHNK-----GGGP--VCFVEFEDVSFATQ 55

Query: 193 AMDALQ 198
           A+++LQ
Sbjct: 56  ALNSLQ 61

This subfamily corresponds to the RRM of the family including yeast cell wall integrity protein scw1, yeast Whi3 protein, yeast Whi4 protein and similar proteins. The strong cell wall protein 1, scw1, is a nonessential cytoplasmic RNA-binding protein that regulates septation and cell-wall structure in fission yeast. It may function as an inhibitor of septum formation, such that its loss of function allows weak SIN signaling to promote septum formation. It's RRM domain shows high homology to two budding yeast proteins, Whi3 and Whi4. Whi3 is a dose-dependent modulator of cell size and has been implicated in cell cycle control in the yeast Saccharomyces cerevisiae. It functions as a negative regulator of ceroid-lipofuscinosis, neuronal 3 (Cln3), a G1 cyclin that promotes transcription of many genes to trigger the G1/S transition in budding yeast. It specifically binds the CLN3 mRNA and localizes it into discrete cytoplasmic loci that may locally restrict Cln3 synthesis to modulate cell cycle progression. Moreover, Whi3 plays a key role in cell fate determination in budding yeast. The RRM domain is essential for Whi3 function. Whi4 is a partially redundant homolog of Whi3, also containing one RRM. Some uncharacterized family members of this subfamily contain two RRMs; their RRM1 shows high sequence homology to the RRM of RNA-binding protein with multiple splicing (RBP-MS)-like proteins. Length = 79

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

 Score = 50.3 bits (121), Expect = 9e-09
 Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK-ESRHPGGDPLILCFVDFVSPAHAA 191
           + L V  +P + +++E+  +F PF   K VRL  K +  H G       FV+FV+   A 
Sbjct: 1   TKLIVRNVPFEATKKELRELFSPFGQVKSVRLPKKFDGSHRG-----FAFVEFVTKQEAQ 55

Query: 192 TAMDALQ 198
            AM+AL+
Sbjct: 56  NAMEALK 62

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

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

 Score = 45.9 bits (109), Expect = 5e-07
 Identities = 23/74 (31%), Positives = 39/74 (52%), Gaps = 7/74 (9%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
            LFV GLP   ++ E+  +F+     K VRLV+  S  P G    L +V++ + + A+ A
Sbjct: 4   KLFVSGLPFSVTKEELEKLFKKHGVVKSVRLVTNRSGKPKG----LAYVEYENESSASQA 59

Query: 194 ---MDALQVQSKVV 204
              MD  +++ K +
Sbjct: 60  VLKMDGTEIKEKTI 73

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

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

 Score = 45.2 bits (108), Expect = 6e-07
 Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 5/64 (7%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           L+V  LP   +  ++   F P+   + VRLV  + R  G       FV+F SP  A  A+
Sbjct: 1   LYVRNLPPSVTEEDLREFFSPYGKVEGVRLVRNKDRPRG-----FAFVEFASPEDAEAAL 55

Query: 195 DALQ 198
             L 
Sbjct: 56  KKLN 59

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

>gnl|CDD|241015 cd12571, RRM6_RBM19, RNA recognition motif 6 in RNA-binding protein 19 (RBM19) and similar proteins

 Score = 45.5 bits (108), Expect = 6e-07
 Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 8/69 (11%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK---ESRHPGGDPLILCFVDFVSPAH 189
           S + V  +P + + +E+  +F  F   K VRL  K      H G       FVDF++   
Sbjct: 1   SKILVRNIPFEATVKELRELFSTFGELKTVRLPKKMTGTGSHRG-----FGFVDFITKQD 55

Query: 190 AATAMDALQ 198
           A  A  AL 
Sbjct: 56  AKRAFKALC 64

This subgroup corresponds to the RRM6 of RBM19, also termed RNA-binding domain-1 (RBD-1), which is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. RBM19 has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

>gnl|CDD|241127 cd12683, RRM_RBPMS2, RNA recognition motif in vertebrate RNA-binding protein with multiple splicing 2 (RBP-MS2)

 Score = 44.6 bits (105), Expect = 1e-06
 Identities = 30/64 (46%), Positives = 35/64 (54%), Gaps = 7/64 (10%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV F S A A  A
Sbjct: 3   TLFVSGLPVDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FVTFDSRAGAEAA 55

Query: 194 MDAL 197
            +AL
Sbjct: 56  KNAL 59

This subfamily corresponds to the RRM of RBP-MS2, encoded by RBPMS2 gene, a paralog of RNA-binding protein with multiple splicing (RBP-MS). The biological function of RBP-MS2 remains unclear. Like RBP-MS, RBP-MS2 contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 76

>gnl|CDD|240925 cd12481, RRM2_U2B, RNA recognition motif 2 found in vertebrate U2 small nuclear ribonucleoprotein B" (U2B")

 Score = 43.8 bits (103), Expect = 2e-06
 Identities = 27/71 (38%), Positives = 38/71 (53%), Gaps = 10/71 (14%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           PP+    LF+  LP + +   ++ +F  F G+KEVRLV    RH       + FV+F + 
Sbjct: 3   PPN--YILFLNNLPEETNEMMLSMLFNQFPGFKEVRLVP--GRHD------IAFVEFENE 52

Query: 188 AHAATAMDALQ 198
           A A  A DALQ
Sbjct: 53  AQAGAARDALQ 63

This subgroup corresponds to the RRM1 of U2B" (also termed U2 snRNP B"), a unique protein that comprises the U2 snRNP. It was initially identified to bind to stem-loop IV (SLIV) at the 3' end of U2 snRNA. Additional research indicates U2B" binds to U1 snRNA stem-loop II (SLII) as well and shows no preference for SLIV or SLII on the basis of binding affinity. U2B" does not require an auxiliary protein for binding to RNA and its nuclear transport is independent of U2 snRNA binding. U2B" contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It also contains a nuclear localization signal (NLS) in the central domain. However, nuclear import of U2B'' does not depend on this NLS. The N-terminal RRM is sufficient to direct U2B" to the nucleus. . Length = 80

>gnl|CDD|241126 cd12682, RRM_RBPMS, RNA recognition motif in vertebrate RNA-binding protein with multiple splicing (RBP-MS)

 Score = 43.5 bits (102), Expect = 3e-06
 Identities = 29/64 (45%), Positives = 35/64 (54%), Gaps = 7/64 (10%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV F S + A  A
Sbjct: 3   TLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FVSFDSRSEAEAA 55

Query: 194 MDAL 197
            +AL
Sbjct: 56  KNAL 59

This subfamily corresponds to the RRM of RBP-MS, also termed heart and RRM expressed sequence (hermes), an RNA-binding proteins found in various vertebrate species. It contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). RBP-MS physically interacts with Smad2, Smad3 and Smad4 and plays a role in regulation of Smad-mediated transcriptional activity. In addition, RBP-MS may be involved in regulation of mRNA translation and localization during Xenopus laevis development. . Length = 76

>gnl|CDD|240762 cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition motif 3 in RNA-binding protein 19 (RBM19) and RNA recognition motif 2 found in multiple RNA-binding domain-containing protein 1 (MRD1)

 Score = 42.7 bits (101), Expect = 5e-06
 Identities = 22/64 (34%), Positives = 29/64 (45%), Gaps = 5/64 (7%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRL-VSKESRHPGGDPLILCFVDFVSPAHAATA 193
           LFV  LP   +  E+  +F  F    EV L + KE++   G      FV F+ P HA  A
Sbjct: 2   LFVRNLPFTTTEEELRELFEAFGEISEVHLPLDKETKRSKG----FAFVSFMFPEHAVKA 57

Query: 194 MDAL 197
              L
Sbjct: 58  YSEL 61

This subfamily corresponds to the RRM3 of RBM19 and RRM2 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes involved in ribosome biogenesis by processing rRNA and is essential for preimplantation development. It has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). MRD1 is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RRMs, which may play an important structural role in organizing specific rRNA processing events. . Length = 74

>gnl|CDD|240924 cd12480, RRM2_U1A, RNA recognition motif 2 found in vertebrate U1 small nuclear ribonucleoprotein A (U1 snRNP A or U1-A or U1A)

 Score = 42.4 bits (99), Expect = 9e-06
 Identities = 25/71 (35%), Positives = 37/71 (52%), Gaps = 10/71 (14%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           PP+    LF+  LP + +   ++ +F  F G+KEVRLV    RH       + FV+F + 
Sbjct: 3   PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLVP--GRHD------IAFVEFDNE 52

Query: 188 AHAATAMDALQ 198
             A  A +ALQ
Sbjct: 53  VQAGAAREALQ 63

This subgroup corresponds to the RRM2 of U1A (also termed U1 snRNP A or U1-A), an RNA-binding protein associated with the U1 snRNP, a small RNA-protein complex involved in pre-mRNA splicing. U1A binds with high affinity and specificity to stem-loop II (SLII) of U1 snRNA. It is predominantly a nuclear protein that shuttles between the nucleus and the cytoplasm independently of interactions with U1 snRNA. U1A may be involved in RNA 3'-end processing, specifically cleavage, splicing and polyadenylation, through interacting with a large number of non-snRNP proteins, including polypyrimidine tract binding protein (PTB), polypyrimidine-tract binding protein-associated factor (PSF), and non-POU-domain-containing, octamer-binding (NONO), DEAD (Asp-Glu-Ala-Asp) box polypeptide 5 (DDX5). U1A also binds to a flavivirus NS5 protein and plays an important role in virus replication. It contains two RNA recognition motifs (RRMs); the N-terminal RRM (RRM1) binds tightly and specifically to the U1 snRNA SLII and its own 3'-UTR, while in contrast, the C-terminal RRM (RRM2) does not appear to associate with any RNA and it may be free for binding other proteins. U1A also contains a proline-rich region, and a nuclear localization signal (NLS) in the central domain that is responsible for its nuclear import. . Length = 80

>gnl|CDD|240923 cd12479, RRM2_SNF, RNA recognition motif 2 found in Drosophila melanogaster sex determination protein SNF and similar proteins

 Score = 41.2 bits (96), Expect = 2e-05
 Identities = 25/71 (35%), Positives = 38/71 (53%), Gaps = 10/71 (14%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           PP+    LF+  LP + +   ++ +F  F G+KEVRLV    RH       + FV+F + 
Sbjct: 3   PPN--QILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVP--GRHD------IAFVEFENE 52

Query: 188 AHAATAMDALQ 198
             +A A +ALQ
Sbjct: 53  VQSAAAKEALQ 63

This subgroup corresponds to the RRM2 of SNF (Sans fille), also termed U1 small nuclear ribonucleoprotein A (U1 snRNP A or U1-A or U1A), an RNA-binding protein found in the U1 and U2 snRNPs of Drosophila. It is essential in Drosophila sex determination and possesses a novel dual RNA binding specificity. SNF binds with high affinity to both Drosophila U1 snRNA stem-loop II (SLII) and U2 snRNA stem-loop IV (SLIV). It can also bind to poly(U) RNA tracts flanking the alternatively spliced Sex-lethal (Sxl) exon, as does Drosophila Sex-lethal protein (SXL). SNF contains two RNA recognition motifs (RRMs); it can self-associate through RRM1, and each RRM can recognize poly(U) RNA binding independently. . Length = 80

>gnl|CDD|240828 cd12382, RRM_RBMX_like, RNA recognition motif in heterogeneous nuclear ribonucleoprotein G (hnRNP G), Y chromosome RNA recognition motif 1 (hRBMY), testis-specific heterogeneous nuclear ribonucleoprotein G-T (hnRNP G-T) and similar proteins

 Score = 39.1 bits (92), Expect = 1e-04
 Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 11/70 (15%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV----SKESRHPGGDPLILCFVDFVSPA 188
           + LFV GL +  + +E+  +F  F   +EV L+    + ESR  G       FV F S  
Sbjct: 2   NKLFVSGLSTRTTEKELEALFSKFGRVEEVLLMKDPETGESRGFG-------FVTFESVE 54

Query: 189 HAATAMDALQ 198
            A  A+  L 
Sbjct: 55  DADAAIRDLN 64

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

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

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 4/64 (6%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           + V+ LP + ++++V  +F  +   K VR+  K  +   G      FV+F +   A  AM
Sbjct: 3   ILVKNLPFEATKKDVRTLFSSYGQLKSVRVPKKFDQSARG----FAFVEFSTAKEALNAM 58

Query: 195 DALQ 198
           +AL+
Sbjct: 59  NALK 62

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

>gnl|CDD|240764 cd12318, RRM5_RBM19_like, RNA recognition motif 5 in RNA-binding protein 19 (RBM19 or RBD-1) and similar proteins

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 2/68 (2%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL--CFVDFVSPAHA 190
           +TLFV+ L    +   +   F    G + V +  K+     G  L +   FV+F S   A
Sbjct: 1   TTLFVKNLNFKTTEETLKKHFEKCGGVRSVTIAKKKDPKGPGKLLSMGYGFVEFKSKEAA 60

Query: 191 ATAMDALQ 198
             A+  LQ
Sbjct: 61  QKALKRLQ 68

This subfamily corresponds to the RRM5 of RBM19 and RRM4 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes involved in ribosome biogenesis by processing rRNA and is essential for preimplantation development. It has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 82

>gnl|CDD|241128 cd12684, RRM_cpo, RNA recognition motif in Drosophila couch potato (cpo) coding RNA-binding protein and similar proteins

 Score = 37.7 bits (87), Expect = 4e-04
 Identities = 25/65 (38%), Positives = 32/65 (49%), Gaps = 2/65 (3%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TLFV GLP D   RE+  +FR + GY+   L  K +   G     + FV F + A A  A
Sbjct: 3   TLFVSGLPMDAKPRELYLLFRAYKGYEGSLL--KVTSKNGKTTSPVGFVTFETRAGAEAA 60

Query: 194 MDALQ 198
              LQ
Sbjct: 61  KQDLQ 65

This subfamily corresponds to the RRM of Cpo, an RNA-binding protein encoded by Drosophila couch potato (cpo) gene. Cpo contains a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It may control the processing of RNA molecules required for the proper functioning of the peripheral nervous system (PNS). . Length = 83

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

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 11/63 (17%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           L+V   P D S   +  IF P+   KEV+++S  +           FV+F S   A  A 
Sbjct: 2   LYVRPFPPDTSESAIREIFSPYGAVKEVKMISNFA-----------FVEFESLESAIRAK 50

Query: 195 DAL 197
           D++
Sbjct: 51  DSV 53

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

>gnl|CDD|240759 cd12313, RRM1_RRM2_RBM5_like, RNA recognition motif 1 and 2 in RNA-binding protein 5 (RBM5) and similar proteins

 Score = 36.0 bits (84), Expect = 0.001
 Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 13/73 (17%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVG--YKEVRLV----SKESRHPGGDPLILCFVDFV 185
           ++TL + GL    +  ++            K+VRL+    +  SR   G      FV+F 
Sbjct: 2   TNTLILRGLDLLTTEEDILQALSAIASVPIKDVRLIRDKLTGTSR---G----FAFVEFP 54

Query: 186 SPAHAATAMDALQ 198
           S   A   MDAL 
Sbjct: 55  SLEDATQWMDALN 67

This subfamily includes the RRM1 and RRM2 of RNA-binding protein 5 (RBM5 or LUCA15 or H37) and RNA-binding protein 10 (RBM10 or S1-1), and the RRM2 of RNA-binding protein 6 (RBM6 or NY-LU-12 or g16 or DEF-3). These RBMs share high sequence homology and may play an important role in regulating apoptosis. RBM5 is a known modulator of apoptosis. It may also act as a tumor suppressor or an RNA splicing factor. RBM6 has been predicted to be a nuclear factor based on its nuclear localization signal. Both, RBM6 and RBM5, specifically bind poly(G) RNA. RBM10 is a paralog of RBM5. It may play an important role in mRNA generation, processing and degradation in several cell types. The rat homolog of human RBM10 is protein S1-1, a hypothetical RNA binding protein with poly(G) and poly(U) binding capabilities. All family members contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two C2H2-type zinc fingers, and a G-patch/D111 domain. . Length = 84

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

 Score = 36.0 bits (84), Expect = 0.001
 Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 5/62 (8%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAAT 192
            + + GLP   +  ++   F       + + +V  +   P G+     +V+F SP  A  
Sbjct: 1   VVRLRGLPFSATEEDIRDFFSGLDIPPDGIHIVYDDDGRPTGE----AYVEFASPEDARR 56

Query: 193 AM 194
           A+
Sbjct: 57  AL 58

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

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

 Score = 37.6 bits (86), Expect = 0.003
 Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
             + ++TLFV  LP D +  ++  +F+ F   K VRLV        G      FV+F S 
Sbjct: 111 SKEENNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRET---GKSRGFAFVEFESE 167

Query: 188 AHAATAMDALQ 198
             A  A++ L 
Sbjct: 168 ESAEKAIEELN 178

Length = 306

>gnl|CDD|241011 cd12567, RRM3_RBM19, RNA recognition motif 3 in RNA-binding protein 19 (RBM19) and similar proteins

 Score = 35.1 bits (81), Expect = 0.004
 Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 5/71 (7%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRL-VSKESRHPGGDPLILCFVDFVSPAHA 190
           S  LF+  L   C+  ++  +F  +    EV L + K ++ P G      FV ++ P HA
Sbjct: 2   SGRLFIRNLAYTCTEEDLEKLFSKYGPLSEVHLPIDKLTKKPKG----FAFVTYMIPEHA 57

Query: 191 ATAMDALQVQS 201
             A   L    
Sbjct: 58  VKAFAELDGTV 68

This subgroup corresponds to the RRM3 of RBM19, also termed RNA-binding domain-1 (RBD-1), which is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. RBM19 has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	214
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.75
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.71
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.7
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.68
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.68
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.68
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.67
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.59
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.58
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.53
smart00362	72	RRM_2 RNA recognition motif.	99.52
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.52
PLN03120	260	nucleic acid binding protein; Provisional	99.52
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.5
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.5
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	99.49
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.49
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.48
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.48
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.47
PLN03121	243	nucleic acid binding protein; Provisional	99.47
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.45
KOG0122	270	consensus Translation initiation factor 3, subunit	99.45
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.44
smart00360	71	RRM RNA recognition motif.	99.43
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	99.41
PLN03213	759	repressor of silencing 3; Provisional	99.4
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.4
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.39
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	99.38
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.37
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.36
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.35
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.35
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.35
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.34
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.29
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	99.28
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.28
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.27
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.27
KOG4207	256	consensus Predicted splicing factor, SR protein su	99.26
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.23
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.23
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	99.23
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.21
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.19
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.18
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.17
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	99.16
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.16
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.16
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.13
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	99.13
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.12
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.12
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.1
smart00361	70	RRM_1 RNA recognition motif.	99.1
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	99.03
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	99.0
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.0
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	98.97
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.96
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	98.94
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.91
KOG0533	243	consensus RRM motif-containing protein [RNA proces	98.9
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	98.9
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	98.9
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.88
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.87
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.79
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	98.78
KOG0151	877	consensus Predicted splicing regulator, contains R	98.77
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.67
KOG1457	284	consensus RNA binding protein (contains RRM repeat	98.63
KOG4660	549	consensus Protein Mei2, essential for commitment t	98.63
KOG0226	290	consensus RNA-binding proteins [General function p	98.6
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	98.53
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.51
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.51
KOG1457	284	consensus RNA binding protein (contains RRM repeat	98.5
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	98.5
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	98.43
KOG1548	382	consensus Transcription elongation factor TAT-SF1	98.42
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.4
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	98.36
KOG1995	351	consensus Conserved Zn-finger protein [General fun	98.13
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	98.1
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	98.01
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.96
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	97.95
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.93
KOG4210	285	consensus Nuclear localization sequence binding pr	97.87
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	97.82
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	97.74
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	97.67
KOG1855	484	consensus Predicted RNA-binding protein [General f	97.67
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	97.64
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.53
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.44
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	97.43
KOG2314	698	consensus Translation initiation factor 3, subunit	97.4
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	97.32
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	97.31
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	97.2
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	97.1
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	97.08
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.97
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	96.97
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	96.95
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	96.6
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	96.46
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	96.45
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	96.44
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	96.33
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.22
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	96.04
KOG3152	278	consensus TBP-binding protein, activator of basal	96.02
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	96.01
KOG1548	382	consensus Transcription elongation factor TAT-SF1	95.85
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	95.74
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	95.6
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	95.47
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	95.34
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	95.32
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	95.26
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	95.0
KOG2591	684	consensus c-Mpl binding protein, contains La domai	94.44
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	94.32
KOG2068	327	consensus MOT2 transcription factor [Transcription	93.95
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	93.9
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	93.83
KOG4574	1007	consensus RNA-binding protein (contains RRM and Pu	93.42
KOG2253	668	consensus U1 snRNP complex, subunit SNU71 and rela	92.14
KOG1996	378	consensus mRNA splicing factor [RNA processing and	90.84
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	90.21
KOG4210	285	consensus Nuclear localization sequence binding pr	89.78
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	89.47
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	88.35
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	87.65
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	86.59
KOG0226	290	consensus RNA-binding proteins [General function p	84.58
KOG2135	526	consensus Proteins containing the RNA recognition	82.75
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	81.2

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

Probab=99.75  E-value=5.3e-18  Score=136.46  Aligned_cols=80  Identities=16%  Similarity=0.251  Sum_probs=73.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||++++|++|+++|++||.|++|+|+.++.+   |++||||||+|.+.++|++|++.|||..|.+++++++
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~t---g~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~  109 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRET---GRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVN  109 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCC---CCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3789999999999999999999999999999999998743   6677899999999999999999999999999999997


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +..
T Consensus       110 ~a~  112 (144)
T PLN03134        110 PAN  112 (144)
T ss_pred             eCC
Confidence            653

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.71  E-value=2.1e-16  Score=143.57  Aligned_cols=79  Identities=24%  Similarity=0.302  Sum_probs=73.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++||++|+++|++||.|++|+|+.++.+   |+++|||||+|.++++|++||+.|||..|.++++++.
T Consensus       106 ~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~t---g~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~  182 (346)
T TIGR01659       106 SGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKT---GYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS  182 (346)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCC---CccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence            4789999999999999999999999999999999998743   5677799999999999999999999999999999987


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus       183 ~a  184 (346)
T TIGR01659       183 YA  184 (346)
T ss_pred             cc
Confidence            54

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).

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

Probab=99.70  E-value=2.1e-17  Score=143.82  Aligned_cols=165  Identities=16%  Similarity=0.207  Sum_probs=128.5

Q ss_pred             CCCcccccccccccccccCCCCCCCccccchhhhhhccCC--CCCCCC-CCCCCCCCCCCCCCCCCCCCccccCCCCCCC
Q 028098           33 PSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQ--ISSYSG-GQSARHMSGGMPSRPVDDPRIVGIGGMDPGP  109 (214)
Q Consensus        33 ~~~~~~~~y~~~~~~r~~~~~~~~~~~~~~~~dr~~~~~~--~~~~~~-~~~~r~~~gg~~G~~~~~~~~~~~gg~~~~~  109 (214)
                      ++..+|..-.+++.|-. +--|.|+|+|.+.-+  .-|||  |+||.. .++-+|+- +|+|.=+..|.+ +...+.+-+
T Consensus        69 dls~eI~~e~lr~aF~p-FGevS~akvirD~~T--~KsKGYgFVSf~~k~dAEnAI~-~MnGqWlG~R~I-RTNWATRKp  143 (321)
T KOG0148|consen   69 DLSPEIDNEKLREAFAP-FGEVSDAKVIRDMNT--GKSKGYGFVSFPNKEDAENAIQ-QMNGQWLGRRTI-RTNWATRKP  143 (321)
T ss_pred             hcchhcchHHHHHHhcc-ccccccceEeecccC--CcccceeEEeccchHHHHHHHH-HhCCeeecccee-eccccccCc
Confidence            89999999999997643 666889999987766  47777  568877 47778998 999998887654 344444322


Q ss_pred             CC-CCCCCCCCCCCCCCCCCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHH
Q 028098          110 SA-KDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA  188 (214)
Q Consensus       110 ~~-~~r~~g~~~~~p~~~~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~  188 (214)
                      .. +++...|.- .-....|  .+++|||||++.-+||++|++.|++||.|.+||+..++     |    |+||.|++.|
T Consensus       144 ~e~n~~~ltfde-V~NQssp--~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q-----G----YaFVrF~tkE  211 (321)
T KOG0148|consen  144 SEMNGKPLTFDE-VYNQSSP--DNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ-----G----YAFVRFETKE  211 (321)
T ss_pred             cccCCCCccHHH-HhccCCC--CCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc-----c----eEEEEecchh
Confidence            11 111111110 0011222  38999999999999999999999999999999999997     5    9999999999


Q ss_pred             HHHHHHHHhCCCeecccccccccCCC
Q 028098          189 HAATAMDALQVQSKVVAPNQYQSGST  214 (214)
Q Consensus       189 ~A~~Al~~LnG~~l~~~P~~~~~~~~  214 (214)
                      +|..||..+||..|.+.+.+-.||++
T Consensus       212 aAahAIv~mNntei~G~~VkCsWGKe  237 (321)
T KOG0148|consen  212 AAAHAIVQMNNTEIGGQLVRCSWGKE  237 (321)
T ss_pred             hHHHHHHHhcCceeCceEEEEecccc
Confidence            99999999999999999999999985

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.68  E-value=2.1e-17  Score=150.12  Aligned_cols=153  Identities=14%  Similarity=0.131  Sum_probs=112.4

Q ss_pred             CCCcccccccccccccccCCCCCCCccccchhhhhhccCC--CCCCCCC-CCCCCCCCCCCCCCCCCCCccccCCCCCCC
Q 028098           33 PSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQ--ISSYSGG-QSARHMSGGMPSRPVDDPRIVGIGGMDPGP  109 (214)
Q Consensus        33 ~~~~~~~~y~~~~~~r~~~~~~~~~~~~~~~~dr~~~~~~--~~~~~~~-~~~r~~~gg~~G~~~~~~~~~~~gg~~~~~  109 (214)
                      .+..+++...+++.|.. +-.|.+++++.+..+  .++++  |+.|.+. ++.+|+. .|+|..+.++.+...- ..   
T Consensus       114 nLp~~~te~~L~~lF~~-~G~V~~v~i~~d~~t--g~srGyaFVeF~~~e~A~~Ai~-~LnG~~l~gr~i~V~~-a~---  185 (346)
T TIGR01659       114 YLPQDMTDRELYALFRT-IGPINTCRIMRDYKT--GYSFGYAFVDFGSEADSQRAIK-NLNGITVRNKRLKVSY-AR---  185 (346)
T ss_pred             CCCCCCCHHHHHHHHHh-cCCEEEEEEEecCCC--CccCcEEEEEEccHHHHHHHHH-HcCCCccCCceeeeec-cc---
Confidence            45667777777776665 334667777653333  24554  6788886 5557887 8999888776543311 00   


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHH
Q 028098          110 SAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAH  189 (214)
Q Consensus       110 ~~~~r~~g~~~~~p~~~~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~  189 (214)
                                   +..  .....++|||+|||.++||++|+++|++||.|++|+|+.++.+   |++||||||+|.++++
T Consensus       186 -------------p~~--~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~t---g~~kG~aFV~F~~~e~  247 (346)
T TIGR01659       186 -------------PGG--ESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLT---GTPRGVAFVRFNKREE  247 (346)
T ss_pred             -------------ccc--cccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCC---CccceEEEEEECCHHH
Confidence                         000  0112578999999999999999999999999999999998743   6778899999999999


Q ss_pred             HHHHHHHhCCCeecc--ccccccc
Q 028098          190 AATAMDALQVQSKVV--APNQYQS  211 (214)
Q Consensus       190 A~~Al~~LnG~~l~~--~P~~~~~  211 (214)
                      |++||+.||++.+.+  .|++++.
T Consensus       248 A~~Ai~~lng~~~~g~~~~l~V~~  271 (346)
T TIGR01659       248 AQEAISALNNVIPEGGSQPLTVRL  271 (346)
T ss_pred             HHHHHHHhCCCccCCCceeEEEEE
Confidence            999999999998866  5776654

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).

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.68  E-value=1.4e-16  Score=142.48  Aligned_cols=78  Identities=19%  Similarity=0.178  Sum_probs=72.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +.+|||+|||+++++++|+++|++||.|.+|+|+.++.+   |.+||||||+|.+.++|.+|++.|||+.|.++++++.+
T Consensus       269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t---~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~  345 (352)
T TIGR01661       269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTT---NQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSF  345 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCC---CCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            457999999999999999999999999999999999733   67778999999999999999999999999999999876


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      -
T Consensus       346 ~  346 (352)
T TIGR01661       346 K  346 (352)
T ss_pred             c
Confidence            4

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.68  E-value=1.3e-16  Score=142.66  Aligned_cols=79  Identities=22%  Similarity=0.342  Sum_probs=73.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +.++|||+|||.+++|++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++||+.|||..|.++++++.
T Consensus         2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~---g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~   78 (352)
T TIGR01661         2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVT---GQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVS   78 (352)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCC---CccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEE
Confidence            3689999999999999999999999999999999998743   6777899999999999999999999999999999886


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus        79 ~a   80 (352)
T TIGR01661        79 YA   80 (352)
T ss_pred             ee
Confidence            54

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

>PF00076 RRM_1: RNA recognition motif

Probab=99.67  E-value=1.9e-16  Score=109.16  Aligned_cols=70  Identities=24%  Similarity=0.403  Sum_probs=64.3

Q ss_pred             EEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       135 LfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      |||+|||.++++++|+++|++||.|..+.+..+..    +..+++|||+|.+.++|++|++.|||+.+.+++++
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~----~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSS----GKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETT----SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhccccccccccc----ccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            79999999999999999999999999999999732    56677999999999999999999999999988763

(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 ....

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

Probab=99.59  E-value=1.3e-15  Score=146.81  Aligned_cols=153  Identities=10%  Similarity=0.095  Sum_probs=105.8

Q ss_pred             cccCCCCCCCccccchhhhhh-ccCC--CCCCCCC-CCCCCCCCCCCCCCCCCCCccccCCCCCCCCCCCCCCCCCCCCC
Q 028098           48 RGALRGMRDTDSLGASYDRYL-RSAQ--ISSYSGG-QSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRS  123 (214)
Q Consensus        48 r~~~~~~~~~~~~~~~~dr~~-~~~~--~~~~~~~-~~~r~~~gg~~G~~~~~~~~~~~gg~~~~~~~~~r~~g~~~~~p  123 (214)
                      +..+..+...+.|.-.+|+.. .++|  |..|.+. ++-+++. .|+|..+.++.+...-...   .+...  ...... 
T Consensus       125 r~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~-~lnG~~i~GR~IkV~rp~~---~p~a~--~~~~~~-  197 (612)
T TIGR01645       125 RRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALE-QMNGQMLGGRNIKVGRPSN---MPQAQ--PIIDMV-  197 (612)
T ss_pred             HHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHH-hcCCeEEecceeeeccccc---ccccc--cccccc-
Confidence            333343444444444456443 5665  5678776 4446776 8899888877654321000   00000  000000 


Q ss_pred             CCCCCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          124 EVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       124 ~~~~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                        .......++|||+|||.++++++|+++|+.||.|++|+|+.++.+   |++||||||+|.+.++|.+|++.|||+.|.
T Consensus       198 --~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~t---gksKGfGFVeFe~~e~A~kAI~amNg~elg  272 (612)
T TIGR01645       198 --QEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTG---RGHKGYGFIEYNNLQSQSEAIASMNLFDLG  272 (612)
T ss_pred             --cccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCC---CCcCCeEEEEECCHHHHHHHHHHhCCCeeC
Confidence              001123579999999999999999999999999999999998743   567779999999999999999999999999


Q ss_pred             ccccccccC
Q 028098          204 VAPNQYQSG  212 (214)
Q Consensus       204 ~~P~~~~~~  212 (214)
                      ++.+++.+.
T Consensus       273 Gr~LrV~kA  281 (612)
T TIGR01645       273 GQYLRVGKC  281 (612)
T ss_pred             CeEEEEEec
Confidence            999988654

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.

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

Probab=99.58  E-value=2.6e-15  Score=118.32  Aligned_cols=78  Identities=17%  Similarity=0.241  Sum_probs=70.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .++||||+||++.++||+|.+||+.+|.|+.|-|--++.+   -.|.|||||+|.+.++|+.|++-++|+.|..+||.+-
T Consensus        35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~k---ktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D  111 (153)
T KOG0121|consen   35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFK---KTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRID  111 (153)
T ss_pred             hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCC---cCccceEEEEEecchhHHHHHHHhccCcccccceeee
Confidence            4899999999999999999999999999999988888733   2355699999999999999999999999999999886


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      |
T Consensus       112 ~  112 (153)
T KOG0121|consen  112 W  112 (153)
T ss_pred             c
Confidence            5

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.53  E-value=5.5e-14  Score=97.97  Aligned_cols=69  Identities=22%  Similarity=0.398  Sum_probs=61.7

Q ss_pred             EEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccc
Q 028098          135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPN  207 (214)
Q Consensus       135 LfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~  207 (214)
                      |||+|||+++++++|.++|+.||.|..+++..++.    |.++++|||+|.++++|++|++.++|..+.++.+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~----~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l   69 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD----GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKL   69 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT----SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec----cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEc
Confidence            79999999999999999999999999999998864    4667799999999999999999999999988764

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 ....

>smart00362 RRM_2 RNA recognition motif

Probab=99.52  E-value=7.3e-14  Score=94.50  Aligned_cols=72  Identities=28%  Similarity=0.439  Sum_probs=65.4

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +|||+|||.++++++|+++|++||.+..+++..++     +.++++|||+|.+.++|+.|++.|+|..+.+++++++
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~-----~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT-----GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC-----CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            58999999999999999999999999999998876     3455699999999999999999999999998887653

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

Probab=99.52  E-value=3.7e-14  Score=136.74  Aligned_cols=78  Identities=15%  Similarity=0.230  Sum_probs=72.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++++++|+++|++||.|++|+|+.++.+   |++||||||+|.+.++|+.|++.|||..|.+++++++
T Consensus       106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~T---gkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~  182 (612)
T TIGR01645       106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPAT---GKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG  182 (612)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCC---CCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeec
Confidence            3689999999999999999999999999999999998743   6778899999999999999999999999999999885


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      .
T Consensus       183 r  183 (612)
T TIGR01645       183 R  183 (612)
T ss_pred             c
Confidence            3

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

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.52  E-value=3.6e-14  Score=123.87  Aligned_cols=74  Identities=19%  Similarity=0.223  Sum_probs=67.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+.+|+++|+++|+.||.|.+|+|+.++.      ++|||||+|.++++|+.|| .|||..|.++++.+..
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~------~~GfAFVtF~d~eaAe~Al-lLnG~~l~gr~V~Vt~   76 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE------RSQIAYVTFKDPQGAETAL-LLSGATIVDQSVTITP   76 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC------CCCEEEEEeCcHHHHHHHH-HhcCCeeCCceEEEEe
Confidence            57999999999999999999999999999999998863      2239999999999999999 5999999999998865


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        77 a   77 (260)
T PLN03120         77 A   77 (260)
T ss_pred             c
Confidence            3

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

Probab=99.50  E-value=5e-14  Score=134.28  Aligned_cols=76  Identities=22%  Similarity=0.374  Sum_probs=70.8

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccC
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSG  212 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~  212 (214)
                      +|||+|||.++||++|+++|++||.|.+|+|..++.+   ++++|||||+|.+.++|++|++.||+..|.+++++|.|.
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t---~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s   77 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVT---RRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWS   77 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCC---CCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecc
Confidence            7999999999999999999999999999999999843   566779999999999999999999999999999999764

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

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

Probab=99.50  E-value=5.8e-14  Score=130.07  Aligned_cols=78  Identities=21%  Similarity=0.311  Sum_probs=72.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||.++++++|+++|++||.|..|+|+.++.+   |+++|||||+|.+.++|++|++.|||+.|.++++.+.+
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~---g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~  262 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPET---GRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGY  262 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCC---CccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEE
Confidence            689999999999999999999999999999999998743   67778999999999999999999999999999999887


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      +
T Consensus       263 a  263 (457)
T TIGR01622       263 A  263 (457)
T ss_pred             c
Confidence            4

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.

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

Probab=99.49  E-value=1.2e-13  Score=105.45  Aligned_cols=79  Identities=20%  Similarity=0.336  Sum_probs=71.4

Q ss_pred             CCCCCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          124 EVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       124 ~~~~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                      ...+||+.++.|||.|||+.+|.++..+||.+||.|+.+||-..+.++  |    -|||.|++..+|.+|++.|+|+.+.
T Consensus        10 ~~rlppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~Tr--G----TAFVVYedi~dAk~A~dhlsg~n~~   83 (124)
T KOG0114|consen   10 NIRLPPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETR--G----TAFVVYEDIFDAKKACDHLSGYNVD   83 (124)
T ss_pred             CCCCChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcC--c----eEEEEehHhhhHHHHHHHhcccccC
Confidence            346778889999999999999999999999999999999999887542  4    9999999999999999999999999


Q ss_pred             ccccc
Q 028098          204 VAPNQ  208 (214)
Q Consensus       204 ~~P~~  208 (214)
                      .++..
T Consensus        84 ~ryl~   88 (124)
T KOG0114|consen   84 NRYLV   88 (124)
T ss_pred             CceEE
Confidence            88754

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

Probab=99.49  E-value=1e-13  Score=128.45  Aligned_cols=77  Identities=19%  Similarity=0.245  Sum_probs=70.8

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |++||||||+|.+.++|++||. |+|..|.+.|+.++
T Consensus        88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~---~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~  163 (457)
T TIGR01622        88 DDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNS---RRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQ  163 (457)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCC---CCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEe
Confidence            4789999999999999999999999999999999998743   6778899999999999999995 99999999999886


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      .
T Consensus       164 ~  164 (457)
T TIGR01622       164 S  164 (457)
T ss_pred             e
Confidence            4

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

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

Probab=99.48  E-value=1.1e-13  Score=129.72  Aligned_cols=79  Identities=16%  Similarity=0.283  Sum_probs=71.9

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +..++|||+|||..+++++|+++|++||.|..+.|+.+..+   |+++|||||+|.+.++|+.||+.|||..|.+..+.+
T Consensus       293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~---g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v  369 (509)
T TIGR01642       293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIAT---GLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHV  369 (509)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCC---CCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence            34689999999999999999999999999999999988643   677889999999999999999999999999998877


Q ss_pred             cc
Q 028098          210 QS  211 (214)
Q Consensus       210 ~~  211 (214)
                      +.
T Consensus       370 ~~  371 (509)
T TIGR01642       370 QR  371 (509)
T ss_pred             EE
Confidence            54

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

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

Probab=99.48  E-value=1.3e-13  Score=132.43  Aligned_cols=76  Identities=24%  Similarity=0.249  Sum_probs=67.4

Q ss_pred             CCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec-cccc
Q 028098          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV-VAPN  207 (214)
Q Consensus       129 ~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~-~~P~  207 (214)
                      ++..++|||+|||++++|++|.++|++||.|.+|+|+.+.+    |+++|||||+|.+.++|++||+.|||+.|. ++.+
T Consensus        55 p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~s----G~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l  130 (578)
T TIGR01648        55 PGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFS----GQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLL  130 (578)
T ss_pred             CCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCC----CCccceEEEEeCCHHHHHHHHHHcCCCeecCCccc
Confidence            34578999999999999999999999999999999999964    566779999999999999999999999885 4444


Q ss_pred             c
Q 028098          208 Q  208 (214)
Q Consensus       208 ~  208 (214)
                      .
T Consensus       131 ~  131 (578)
T TIGR01648       131 G  131 (578)
T ss_pred             c
Confidence            3

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.

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

Probab=99.47  E-value=1.5e-13  Score=113.57  Aligned_cols=78  Identities=31%  Similarity=0.465  Sum_probs=72.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ..+|||+|||.++++++|.++|.+||.|..+++..++..   |+++|||||+|.+.++|..|++.|+|..|.+++++++.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~---~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~  191 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRET---GKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQK  191 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeecccc---CccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeec
Confidence            589999999999999999999999999999999999722   67777999999999999999999999999999999876


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus       192 ~  192 (306)
T COG0724         192 A  192 (306)
T ss_pred             c
Confidence            3

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.47  E-value=1.5e-13  Score=118.73  Aligned_cols=73  Identities=16%  Similarity=0.154  Sum_probs=66.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ..||||+||++.+|+++|+++|+.||.|.+|+|+.+.      +.++||||+|.++++|+.|+ .|+|..|.+.|+.|-.
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~------et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~   77 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG------EYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITR   77 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC------CcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEe
Confidence            5799999999999999999999999999999999984      23349999999999999999 8999999999988753

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

Probab=99.45  E-value=2.5e-13  Score=129.51  Aligned_cols=78  Identities=17%  Similarity=0.221  Sum_probs=71.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+||+.++++++|+++|++||.|++|+++.+..    |.++|||||+|.+.++|++|++.|||..|.++|+.+.
T Consensus       284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~----g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~  359 (562)
T TIGR01628       284 QGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEK----GVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVA  359 (562)
T ss_pred             CCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCC----CCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEE
Confidence            467899999999999999999999999999999999964    5666799999999999999999999999999999886


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus       360 ~a  361 (562)
T TIGR01628       360 LA  361 (562)
T ss_pred             ec
Confidence            54

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

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

Probab=99.45  E-value=1.9e-13  Score=117.61  Aligned_cols=78  Identities=24%  Similarity=0.257  Sum_probs=70.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|-|.||+.+++|++|.+||.+||.|..|.|..++.+   |.+||||||.|.++++|++||+.|||+-+..--++.-
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~T---G~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvE  264 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKET---GLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVE  264 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccceeEEEEcccc---CcccceEEEEEecHHHHHHHHHHccCcccceEEEEEE
Confidence            4789999999999999999999999999999999999965   8899999999999999999999999987766555444


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      |
T Consensus       265 w  265 (270)
T KOG0122|consen  265 W  265 (270)
T ss_pred             e
Confidence            3

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

Probab=99.44  E-value=1.5e-13  Score=117.68  Aligned_cols=61  Identities=21%  Similarity=0.337  Sum_probs=57.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHH
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMD  195 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~  195 (214)
                      -++||||+|+|++..++|++.|++||+|+++.++.|+.+   |++|||+||.|.+.++|+.|++
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t---~rskGyGfVTf~d~~aa~rAc~   72 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNT---GRSKGYGFVTFRDAEAATRACK   72 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCC---ccccceeeEEeecHHHHHHHhc
Confidence            479999999999999999999999999999999999955   7888999999999999999996

>smart00360 RRM RNA recognition motif

Probab=99.43  E-value=6.6e-13  Score=89.29  Aligned_cols=70  Identities=30%  Similarity=0.442  Sum_probs=62.8

Q ss_pred             EcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          137 VEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       137 VgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      |+|||..+++++|+++|++||.|.++.+..++..   ++++++|||+|.+.++|+.|++.|++..+.++.+++
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~---~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v   70 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDT---GKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV   70 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCC---CCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence            5799999999999999999999999999887632   566779999999999999999999999998887765

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

Probab=99.41  E-value=2.4e-14  Score=118.74  Aligned_cols=75  Identities=15%  Similarity=0.303  Sum_probs=71.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +..|||||||++.||.+|..+|++||+|+.|-|++|+.+   |++|||||..|++..+..-|+..|||..|.++-+++
T Consensus        35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~T---GKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirV  109 (219)
T KOG0126|consen   35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKT---GKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRV  109 (219)
T ss_pred             ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCC---CcccceEEEEecCccceEEEEeccCCceecceeEEe
Confidence            789999999999999999999999999999999999965   899999999999999999999999999999998875

>PLN03213 repressor of silencing 3; Provisional

Probab=99.40  E-value=5.8e-13  Score=124.09  Aligned_cols=75  Identities=17%  Similarity=0.271  Sum_probs=68.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCH--HHHHHHHHHhCCCeeccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP--AHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~--~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..+||||||++++++++|..+|++||.|..|.|++..     |  +|||||+|.+.  .++.+||+.|||....++.+++
T Consensus        10 gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRET-----G--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKV   82 (759)
T PLN03213         10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTK-----G--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRL   82 (759)
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeccc-----C--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEE
Confidence            5799999999999999999999999999999999443     3  55999999987  7899999999999999999999


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      +.++
T Consensus        83 NKAK   86 (759)
T PLN03213         83 EKAK   86 (759)
T ss_pred             eecc
Confidence            8765

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

Probab=99.40  E-value=4.3e-13  Score=110.58  Aligned_cols=70  Identities=21%  Similarity=0.382  Sum_probs=62.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +++||||||+.++++.||+.+|..||.|..|-|.....    |    ||||||+++.+|+.|+..|+|..|++.-+.+
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPP----G----fAFVEFed~RDA~DAvr~LDG~~~cG~r~rV   79 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPP----G----FAFVEFEDPRDAEDAVRYLDGKDICGSRIRV   79 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCC----C----ceEEeccCcccHHHHHhhcCCccccCceEEE
Confidence            68999999999999999999999999999987766542    4    9999999999999999999999999865543

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

Probab=99.39  E-value=9.2e-13  Score=124.12  Aligned_cols=72  Identities=17%  Similarity=0.229  Sum_probs=66.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh--CCCeeccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL--QVQSKVVAPNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L--nG~~l~~~P~~~  209 (214)
                      +++|||+|||+++++++|+++|++||.|.+|+|+.++     |    ||||+|++.++|++|++.|  ++..|.++|+++
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k-----~----~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v   72 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGK-----R----QALVEFEDEESAKACVNFATSVPIYIRGQPAFF   72 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCC-----C----EEEEEeCchHHHHHHHHHhhcCCceEcCeEEEE
Confidence            7899999999999999999999999999999998654     3    9999999999999999874  789999999998


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      ++.
T Consensus        73 ~~s   75 (481)
T TIGR01649        73 NYS   75 (481)
T ss_pred             Eec
Confidence            764

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).

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

Probab=99.38  E-value=1.3e-12  Score=115.28  Aligned_cols=77  Identities=21%  Similarity=0.220  Sum_probs=72.0

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      |+-+||||+-|+.+++|..|+..|+.||.|+.|+||.++.+   |+|||||||+|+++.+..+|.+..+|.+|.++-+.+
T Consensus        99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vT---gkskGYAFIeye~erdm~~AYK~adG~~Idgrri~V  175 (335)
T KOG0113|consen   99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVT---GKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILV  175 (335)
T ss_pred             CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeeccc---CCccceEEEEeccHHHHHHHHHhccCceecCcEEEE
Confidence            56799999999999999999999999999999999999854   889999999999999999999999999999987754

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

Probab=99.37  E-value=4.4e-13  Score=111.12  Aligned_cols=81  Identities=16%  Similarity=0.173  Sum_probs=72.5

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +...||||+||+..++++-|++||-+.|.|+.++++.++-+   .+.+|||||+|.++++|+-|++.||..+|+++|++.
T Consensus         7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~---~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv   83 (203)
T KOG0131|consen    7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVT---QKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRV   83 (203)
T ss_pred             CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhc---ccccceeEEEEechhhhHHHHHHHHHHHhcCceeEE
Confidence            34679999999999999999999999999999999999832   123349999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+.+
T Consensus        84 ~kas   87 (203)
T KOG0131|consen   84 NKAS   87 (203)
T ss_pred             Eecc
Confidence            8755

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

Probab=99.36  E-value=1.4e-12  Score=116.36  Aligned_cols=77  Identities=19%  Similarity=0.236  Sum_probs=70.0

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +..++|+|.|+|+...|.||+.+|.+||.|.+|.|+.++.     -+|||+||+|+++++|++|.++|||..|.++-|-+
T Consensus        94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNER-----GSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEV  168 (376)
T KOG0125|consen   94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNER-----GSKGFGFVTMENPADADRARAELHGTVVEGRKIEV  168 (376)
T ss_pred             CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccC-----CCCccceEEecChhhHHHHHHHhhcceeeceEEEE
Confidence            4468999999999999999999999999999999999973     25679999999999999999999999999998766


Q ss_pred             cc
Q 028098          210 QS  211 (214)
Q Consensus       210 ~~  211 (214)
                      .+
T Consensus       169 n~  170 (376)
T KOG0125|consen  169 NN  170 (376)
T ss_pred             ec
Confidence            54

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

Probab=99.35  E-value=2.2e-13  Score=118.54  Aligned_cols=162  Identities=17%  Similarity=0.292  Sum_probs=115.5

Q ss_pred             CCCCCCCcccccccccc----cccccCCCCCCCccccchhhhhh-ccCCC--CCCCC-CCCCCCCCCCCCCCCCCCCCcc
Q 028098           29 DYDVPSGHELSSYYTRD----DDRGALRGMRDTDSLGASYDRYL-RSAQI--SSYSG-GQSARHMSGGMPSRPVDDPRIV  100 (214)
Q Consensus        29 ~~~~~~~~~~~~y~~~~----~~r~~~~~~~~~~~~~~~~dr~~-~~~~~--~~~~~-~~~~r~~~gg~~G~~~~~~~~~  100 (214)
                      |-+.+..+.+.|||||.    ++|.-|.|+.+.++..-.-|.-. +|-|+  +-+-. .++-+++- -++|.-+-     
T Consensus        36 ~t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~Ain-tlNGLrLQ-----  109 (360)
T KOG0145|consen   36 DTDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAIN-TLNGLRLQ-----  109 (360)
T ss_pred             CcCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHh-hhcceeec-----
Confidence            44556789999999986    77999999999887754444321 33332  22222 24445554 45554332     


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEE
Q 028098          101 GIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC  180 (214)
Q Consensus       101 ~~gg~~~~~~~~~r~~g~~~~~p~~~~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~a  180 (214)
                                  .+.+..+-.+|......  ...|||.+||..+|..||+++|++||.|...||+.|..+   |-+||.+
T Consensus       110 ------------~KTIKVSyARPSs~~Ik--~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvt---g~srGVg  172 (360)
T KOG0145|consen  110 ------------NKTIKVSYARPSSDSIK--DANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVT---GLSRGVG  172 (360)
T ss_pred             ------------cceEEEEeccCChhhhc--ccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhccc---ceeccee
Confidence                        23444444555443333  468999999999999999999999999999999999844   6778899


Q ss_pred             EEEecCHHHHHHHHHHhCCCeec--ccccccccCC
Q 028098          181 FVDFVSPAHAATAMDALQVQSKV--VAPNQYQSGS  213 (214)
Q Consensus       181 FVeF~~~~~A~~Al~~LnG~~l~--~~P~~~~~~~  213 (214)
                      ||.|+.+.+|+.||..|||.+-.  ..||-+++.+
T Consensus       173 FiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFan  207 (360)
T KOG0145|consen  173 FIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFAN  207 (360)
T ss_pred             EEEecchhHHHHHHHhccCCCCCCCCCCeEEEecC
Confidence            99999999999999999998654  3456555543

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

Probab=99.35  E-value=2e-12  Score=124.36  Aligned_cols=71  Identities=20%  Similarity=0.261  Sum_probs=65.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCC--CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPF--VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~f--G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ..++|||+||++++++++|+++|++|  |.|++|+++.+           ||||+|.+.++|++|++.|||..|.+++++
T Consensus       232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~rg-----------fAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~  300 (578)
T TIGR01648       232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIRD-----------YAFVHFEDREDAVKAMDELNGKELEGSEIE  300 (578)
T ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeecC-----------eEEEEeCCHHHHHHHHHHhCCCEECCEEEE
Confidence            35789999999999999999999999  99999987643           999999999999999999999999999999


Q ss_pred             cccC
Q 028098          209 YQSG  212 (214)
Q Consensus       209 ~~~~  212 (214)
                      +.+.
T Consensus       301 V~~A  304 (578)
T TIGR01648       301 VTLA  304 (578)
T ss_pred             EEEc
Confidence            9865

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.

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

Probab=99.35  E-value=6.6e-12  Score=85.22  Aligned_cols=73  Identities=27%  Similarity=0.442  Sum_probs=65.4

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +|+|+|||..+++++|+++|+.||.|..+.+..++..    +++++|||+|.+.++|..|++.+++..+.++.+.++
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~----~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~   73 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT----KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE   73 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC----CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence            5899999999999999999999999999999987643    345599999999999999999999999988887664

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).

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

Probab=99.34  E-value=3.7e-12  Score=120.04  Aligned_cols=73  Identities=16%  Similarity=0.275  Sum_probs=67.3

Q ss_pred             CCCEEEEcCCCC-cCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~-~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ++++|||+|||+ .+++++|++||++||.|.+|+++.++.    |    ||||+|.+.++|+.|++.|||..|.++++++
T Consensus       274 ~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~----g----~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v  345 (481)
T TIGR01649       274 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKK----E----TALIEMADPYQAQLALTHLNGVKLFGKPLRV  345 (481)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCC----C----EEEEEECCHHHHHHHHHHhCCCEECCceEEE
Confidence            478999999998 699999999999999999999988742    3    9999999999999999999999999999988


Q ss_pred             cc
Q 028098          210 QS  211 (214)
Q Consensus       210 ~~  211 (214)
                      ..
T Consensus       346 ~~  347 (481)
T TIGR01649       346 CP  347 (481)
T ss_pred             EE
Confidence            64

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

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

Probab=99.29  E-value=1.8e-12  Score=118.97  Aligned_cols=79  Identities=24%  Similarity=0.315  Sum_probs=70.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee---cccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK---VVAPNQ  208 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l---~~~P~~  208 (214)
                      ..+|||+.|+..+||.|++++|++||.|++|+|+++..+    .++|||||.|.++|.|..||++|||...   +..|+.
T Consensus       124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~----~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLV  199 (510)
T KOG0144|consen  124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDG----LSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLV  199 (510)
T ss_pred             chhhhhhhccccccHHHHHHHHHhhCccchhhheecccc----cccceeEEEEehHHHHHHHHHhhccceeeccCCCceE
Confidence            679999999999999999999999999999999999863    4455999999999999999999999643   567888


Q ss_pred             cccCCC
Q 028098          209 YQSGST  214 (214)
Q Consensus       209 ~~~~~~  214 (214)
                      +++..|
T Consensus       200 VkFADt  205 (510)
T KOG0144|consen  200 VKFADT  205 (510)
T ss_pred             EEeccc
Confidence            887654

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

Probab=99.28  E-value=5.6e-12  Score=117.56  Aligned_cols=77  Identities=22%  Similarity=0.268  Sum_probs=73.4

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccC
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSG  212 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~  212 (214)
                      +.|||||+|++++|++|.++|+..|.|.+++++.|+.+   |++|||+|++|.+.++|+.|++.|||+++.++++++.+.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~t---G~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~   95 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRET---GKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYA   95 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccC---CCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecc
Confidence            79999999999999999999999999999999999865   899999999999999999999999999999999988654

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

Probab=99.28  E-value=6.1e-12  Score=109.89  Aligned_cols=78  Identities=17%  Similarity=0.231  Sum_probs=72.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .--+||+-|...++-+.|++.|.+||+|.++|+++|-.+   +|+|||+||.|.+.++|+.||+.|||.-|..+-|+-.|
T Consensus        62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T---~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNW  138 (321)
T KOG0148|consen   62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNT---GKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNW  138 (321)
T ss_pred             ceeEEehhcchhcchHHHHHHhccccccccceEeecccC---CcccceeEEeccchHHHHHHHHHhCCeeeccceeeccc
Confidence            346999999999999999999999999999999999855   78899999999999999999999999999999988776


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus       139 A  139 (321)
T KOG0148|consen  139 A  139 (321)
T ss_pred             c
Confidence            4

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

Probab=99.27  E-value=9.1e-12  Score=114.41  Aligned_cols=69  Identities=26%  Similarity=0.508  Sum_probs=63.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      ..-+|||+.+|...+|+||+++|++||.|.+|-|++||.+   |.+||||||.|.++++|.+|+.+|++.+.
T Consensus        33 ~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t---~~s~gcCFv~~~trk~a~~a~~Alhn~kt  101 (510)
T KOG0144|consen   33 SAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKST---GQSKGCCFVKYYTRKEADEAINALHNQKT  101 (510)
T ss_pred             hhhhheeccCCccccHHHHHHHHHHhCceeEEEeeccccc---CcccceEEEEeccHHHHHHHHHHhhcccc
Confidence            4678999999999999999999999999999999999954   67888999999999999999999998654

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

Probab=99.27  E-value=3.7e-12  Score=119.55  Aligned_cols=145  Identities=18%  Similarity=0.221  Sum_probs=102.5

Q ss_pred             CCCCCCCccccchhhhhhccCC--CCCCCCCCCCCCCCCCCCCCCCCCCCccccCC-CCC----CCCCCCCCCCCCCCCC
Q 028098           51 LRGMRDTDSLGASYDRYLRSAQ--ISSYSGGQSARHMSGGMPSRPVDDPRIVGIGG-MDP----GPSAKDRALGLGGGRS  123 (214)
Q Consensus        51 ~~~~~~~~~~~~~~dr~~~~~~--~~~~~~~~~~r~~~gg~~G~~~~~~~~~~~gg-~~~----~~~~~~r~~g~~~~~p  123 (214)
                      .-.|+|...|++-..+  ++++  |..|-+.+.-.-+- ++.|.-+.+-++|.--. +..    ..++.-.+.++.  . 
T Consensus       203 ~gkVrdVriI~Dr~s~--rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~sEaeknr~a~~s~a~~~k~~~--~-  276 (549)
T KOG0147|consen  203 VGKVRDVRIIGDRNSR--RSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQLSEAEKNRAANASPALQGKGFT--G-  276 (549)
T ss_pred             hcCcceeEeeccccch--hhcceeEEEEecccchhhHh-hhcCCcccCceeEecccHHHHHHHHhccccccccccc--c-
Confidence            3478899999755553  7877  46777665553332 57776655555554211 000    000000001111  0 


Q ss_pred             CCCCCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          124 EVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       124 ~~~~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                             +-..|||+||.++++++.|+.+|++||.|..|.+..+..+   |.+|||+||+|.+.++|.+|++.|||+.|.
T Consensus       277 -------p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~t---G~skgfGfi~f~~~~~ar~a~e~lngfelA  346 (549)
T KOG0147|consen  277 -------PMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSET---GRSKGFGFITFVNKEDARKALEQLNGFELA  346 (549)
T ss_pred             -------chhhhhhcccccCchHHHHhhhccCcccceeeeecccccc---ccccCcceEEEecHHHHHHHHHHhccceec
Confidence                   1234999999999999999999999999999999998633   778889999999999999999999999999


Q ss_pred             cccccccc
Q 028098          204 VAPNQYQS  211 (214)
Q Consensus       204 ~~P~~~~~  211 (214)
                      +++|++..
T Consensus       347 Gr~ikV~~  354 (549)
T KOG0147|consen  347 GRLIKVSV  354 (549)
T ss_pred             CceEEEEE
Confidence            99998754

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

Probab=99.26  E-value=7.7e-12  Score=105.81  Aligned_cols=79  Identities=18%  Similarity=0.184  Sum_probs=71.8

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ...+|-|-||.+-++.++|..+|++||.|.+|.|+.|+-+   ++++|||||-|.+..+|+.|+++|+|..|.++-+.+|
T Consensus        12 gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~T---r~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq   88 (256)
T KOG4207|consen   12 GMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYT---RQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQ   88 (256)
T ss_pred             cceeEEecceeccCCHHHHHHHHHHhCcccceeccccccc---ccccceeEEEeeecchHHHHHHhhcceeeccceeeeh
Confidence            3678999999999999999999999999999999999832   4566699999999999999999999999999999877


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      -.
T Consensus        89 ~a   90 (256)
T KOG4207|consen   89 MA   90 (256)
T ss_pred             hh
Confidence            54

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

Probab=99.23  E-value=3.5e-11  Score=110.93  Aligned_cols=70  Identities=24%  Similarity=0.329  Sum_probs=65.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                      -.+-||||.||.++.|+||..||++.|.|-++||+.|+-.   |+++|||||.|-+.++|++|++.||+++|.
T Consensus        82 ~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~s---G~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir  151 (506)
T KOG0117|consen   82 RGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFS---GDNRGYAFVTFCTKEEAQEAIKELNNYEIR  151 (506)
T ss_pred             CCceEEecCCCccccchhhHHHHHhccceeeEEEeecccC---CCCcceEEEEeecHHHHHHHHHHhhCcccc
Confidence            3789999999999999999999999999999999999722   778889999999999999999999999875

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

Probab=99.23  E-value=1.8e-11  Score=106.79  Aligned_cols=79  Identities=22%  Similarity=0.336  Sum_probs=71.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..+.|.|.-||.++|++||+.||..+|+|++|+|++||.+   |.+.||+||.|.++++|++|+..|||..|..+-|+++
T Consensus        40 skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKit---GqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVS  116 (360)
T KOG0145|consen   40 SKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKIT---GQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVS  116 (360)
T ss_pred             ccceeeeeecccccCHHHHHHHhhcccceeeeeeeecccc---ccccccceeeecChHHHHHHHhhhcceeeccceEEEE
Confidence            3578999999999999999999999999999999999944   7777899999999999999999999999988888765


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus       117 yA  118 (360)
T KOG0145|consen  117 YA  118 (360)
T ss_pred             ec
Confidence            43

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

Probab=99.23  E-value=1.8e-11  Score=97.66  Aligned_cols=78  Identities=17%  Similarity=0.225  Sum_probs=72.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ....|||.++...++|++|.+.|..||.|+.+.|--|+.+   |=.||||.|+|++.++|++|+++|||..|.+.++++-
T Consensus        71 EGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRt---Gy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VD  147 (170)
T KOG0130|consen   71 EGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRT---GYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVD  147 (170)
T ss_pred             eeEEEEEeccCcchhHHHHHHHHhhcccccceeecccccc---ccccceeeeehHhHHHHHHHHHhccchhhhCCceeEE
Confidence            3789999999999999999999999999999999999733   7788899999999999999999999999999998875


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      |
T Consensus       148 w  148 (170)
T KOG0130|consen  148 W  148 (170)
T ss_pred             E
Confidence            4

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

Probab=99.21  E-value=3.6e-11  Score=102.46  Aligned_cols=76  Identities=21%  Similarity=0.248  Sum_probs=67.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHH----hhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAH----IFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPN  207 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~----lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~  207 (214)
                      +.||||.||+.-+..++|+.    ||++||.|.+|......      +..|-|||.|.+.+.|..|+.+|+|+.+.++||
T Consensus         9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~------KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~m   82 (221)
T KOG4206|consen    9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTP------KMRGQAFVVFKETEAASAALRALQGFPFYGKPM   82 (221)
T ss_pred             CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCC------CccCceEEEecChhHHHHHHHHhcCCcccCchh
Confidence            56999999999999999887    99999999998766553      344499999999999999999999999999999


Q ss_pred             ccccCC
Q 028098          208 QYQSGS  213 (214)
Q Consensus       208 ~~~~~~  213 (214)
                      +||-.+
T Consensus        83 riqyA~   88 (221)
T KOG4206|consen   83 RIQYAK   88 (221)
T ss_pred             heeccc
Confidence            999664

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

Probab=99.19  E-value=1.8e-11  Score=102.14  Aligned_cols=73  Identities=22%  Similarity=0.377  Sum_probs=63.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +++|||+|||.++.+.||++||.+||.|.+|.|..-..      +..||||+|+++.+|+.||..-+||.+.+--+++.
T Consensus         6 ~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g------~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVE   78 (241)
T KOG0105|consen    6 SRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPG------PPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVE   78 (241)
T ss_pred             cceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCC------CCCeeEEEecCccchhhhhhcccccccCcceEEEE
Confidence            68999999999999999999999999999998866541      23499999999999999999999988887665543

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

Probab=99.18  E-value=1.8e-11  Score=112.28  Aligned_cols=134  Identities=17%  Similarity=0.195  Sum_probs=100.2

Q ss_pred             cccccccccccccc-----cCCCCCCCccccchhhhhhccCCCCCCCC-CCCCCCCCCCCCCCCCCCCCccccCCCCCCC
Q 028098           36 HELSSYYTRDDDRG-----ALRGMRDTDSLGASYDRYLRSAQISSYSG-GQSARHMSGGMPSRPVDDPRIVGIGGMDPGP  109 (214)
Q Consensus        36 ~~~~~y~~~~~~r~-----~~~~~~~~~~~~~~~dr~~~~~~~~~~~~-~~~~r~~~gg~~G~~~~~~~~~~~gg~~~~~  109 (214)
                      ++||.=++-|-|..     .-+.|||+ +  +.-+.|++      |.. .++.+|+- .||...+.+..+..+- ..   
T Consensus         8 ~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvn------f~~~~da~~A~~-~~n~~~~~~~~~rim~-s~---   73 (369)
T KOG0123|consen    8 PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVN------FQQPADAERALD-TMNFDVLKGKPIRIMW-SQ---   73 (369)
T ss_pred             CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEe------cCCHHHHHHHHH-HcCCcccCCcEEEeeh-hc---
Confidence            56666666664422     23566666 4  44454444      444 47778998 8888888876544331 11   


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHH
Q 028098          110 SAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAH  189 (214)
Q Consensus       110 ~~~~r~~g~~~~~p~~~~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~  189 (214)
                                         .| ...|||.||+.+++.++|.++|+.||.|.+|++..++.    | +||| ||+|+++++
T Consensus        74 -------------------rd-~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~----g-~kg~-FV~f~~e~~  127 (369)
T KOG0123|consen   74 -------------------RD-PSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN----G-SKGY-FVQFESEES  127 (369)
T ss_pred             -------------------cC-CceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC----C-ceee-EEEeCCHHH
Confidence                               01 11299999999999999999999999999999999985    3 6779 999999999


Q ss_pred             HHHHHHHhCCCeeccccccc
Q 028098          190 AATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       190 A~~Al~~LnG~~l~~~P~~~  209 (214)
                      |.+|++.|||..+.+.++.+
T Consensus       128 a~~ai~~~ng~ll~~kki~v  147 (369)
T KOG0123|consen  128 AKKAIEKLNGMLLNGKKIYV  147 (369)
T ss_pred             HHHHHHHhcCcccCCCeeEE
Confidence            99999999999998887654

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

Probab=99.17  E-value=3.2e-11  Score=111.17  Aligned_cols=67  Identities=19%  Similarity=0.288  Sum_probs=63.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      -+.|||.||+.++|||.|+.+|++||.|..|+.+.|           ||||.|.++++|.+|++.|||+.|.+.|+-+
T Consensus       259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD-----------YaFVHf~eR~davkAm~~~ngkeldG~~iEv  325 (506)
T KOG0117|consen  259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD-----------YAFVHFAEREDAVKAMKETNGKELDGSPIEV  325 (506)
T ss_pred             eeeeeeeccchhhhHHHHHHHHHhccceEEeecccc-----------eeEEeecchHHHHHHHHHhcCceecCceEEE
Confidence            478999999999999999999999999999998876           9999999999999999999999999998865

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

Probab=99.16  E-value=1.4e-11  Score=105.13  Aligned_cols=76  Identities=24%  Similarity=0.411  Sum_probs=69.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCC--CCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE--SRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k--~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ..+|||||+|..+++|.-|...|-+||.|+.|.++.|.  .+|++     |+||+|+..|+|.+||+.||+..|+++-++
T Consensus         9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRg-----FgFVefe~aEDAaaAiDNMnesEL~Grtir   83 (298)
T KOG0111|consen    9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRG-----FGFVEFEEAEDAAAAIDNMNESELFGRTIR   83 (298)
T ss_pred             cceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccc-----eeEEEeeccchhHHHhhcCchhhhcceeEE
Confidence            46899999999999999999999999999999999997  56664     999999999999999999999999998766


Q ss_pred             ccc
Q 028098          209 YQS  211 (214)
Q Consensus       209 ~~~  211 (214)
                      +.-
T Consensus        84 VN~   86 (298)
T KOG0111|consen   84 VNL   86 (298)
T ss_pred             Eee
Confidence            543

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

Probab=99.16  E-value=5.5e-11  Score=111.91  Aligned_cols=170  Identities=11%  Similarity=0.093  Sum_probs=106.2

Q ss_pred             CCcccccccccccccccCCCCCCCccccchhhhhhccC--CCCCCCCC-CCCCCCCCCCCCCCCCCCCccccCCCCCCCC
Q 028098           34 SGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSA--QISSYSGG-QSARHMSGGMPSRPVDDPRIVGIGGMDPGPS  110 (214)
Q Consensus        34 ~~~~~~~y~~~~~~r~~~~~~~~~~~~~~~~dr~~~~~--~~~~~~~~-~~~r~~~gg~~G~~~~~~~~~~~gg~~~~~~  110 (214)
                      +.+.+++|=+-+-| .-.-.|+.+-+++  +..+.++.  +++.|.-. +.-|+.. ...+.-+.++.+..--. .....
T Consensus        13 lp~~~~~~qL~e~F-S~vGPik~~~vVt--~~gs~~~RGfgfVtFam~ED~qrA~~-e~~~~kf~Gr~l~v~~A-~~R~r   87 (678)
T KOG0127|consen   13 LPFSSTGEQLEEFF-SYVGPIKHAVVVT--NKGSSEKRGFGFVTFAMEEDVQRALA-ETEQSKFEGRILNVDPA-KKRAR   87 (678)
T ss_pred             CCCccchhHHHHhh-hcccCcceeEEec--CCCcccccCccceeeehHhHHHHHHH-HhhcCcccceecccccc-ccccc
Confidence            44555555554432 2234566666665  33333333  35677664 4446665 55555555544332111 10111


Q ss_pred             CCCCCCCC--------CCCCCCCCCCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEE
Q 028098          111 AKDRALGL--------GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV  182 (214)
Q Consensus       111 ~~~r~~g~--------~~~~p~~~~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFV  182 (214)
                      ...-.-+-        ...+|....-..+..+|.|.||||.|.+.+|+.+|+.||.|.+|.|+.++.    |+..|||||
T Consensus        88 ~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d----gklcGFaFV  163 (678)
T KOG0127|consen   88 SEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD----GKLCGFAFV  163 (678)
T ss_pred             chhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC----CCccceEEE
Confidence            10000000        001111110112367999999999999999999999999999999997764    555579999


Q ss_pred             EecCHHHHHHHHHHhCCCeecccccccccC
Q 028098          183 DFVSPAHAATAMDALQVQSKVVAPNQYQSG  212 (214)
Q Consensus       183 eF~~~~~A~~Al~~LnG~~l~~~P~~~~~~  212 (214)
                      .|.+..+|+.|++.+||..|.++|+-+-|.
T Consensus       164 ~fk~~~dA~~Al~~~N~~~i~gR~VAVDWA  193 (678)
T KOG0127|consen  164 QFKEKKDAEKALEFFNGNKIDGRPVAVDWA  193 (678)
T ss_pred             EEeeHHHHHHHHHhccCceecCceeEEeee
Confidence            999999999999999999999999876653

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

Probab=99.16  E-value=8.2e-11  Score=110.36  Aligned_cols=71  Identities=20%  Similarity=0.287  Sum_probs=58.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCC------------CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPF------------VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~f------------G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln  198 (214)
                      ..++|||+|||+++|+++|+++|.++            +.|..+.+..+         +|||||+|.+.++|+.|| +||
T Consensus       174 ~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~---------kg~afVeF~~~e~A~~Al-~l~  243 (509)
T TIGR01642       174 QARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKE---------KNFAFLEFRTVEEATFAM-ALD  243 (509)
T ss_pred             cccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCC---------CCEEEEEeCCHHHHhhhh-cCC
Confidence            46899999999999999999999975            33444444332         339999999999999999 699


Q ss_pred             CCeeccccccccc
Q 028098          199 VQSKVVAPNQYQS  211 (214)
Q Consensus       199 G~~l~~~P~~~~~  211 (214)
                      |..|.+.+++++.
T Consensus       244 g~~~~g~~l~v~r  256 (509)
T TIGR01642       244 SIIYSNVFLKIRR  256 (509)
T ss_pred             CeEeeCceeEecC
Confidence            9999999988863

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

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

Probab=99.13  E-value=3.2e-11  Score=106.33  Aligned_cols=67  Identities=19%  Similarity=0.298  Sum_probs=63.3

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      -+|||||||.++++.+|+.||++||+|.+|.|+.+           |+||..++...|+.||+.||||.|++.-|.+.
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN-----------YgFVHiEdktaaedairNLhgYtLhg~nInVe   69 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN-----------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVE   69 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeeeeecc-----------cceEEeecccccHHHHhhcccceecceEEEEE
Confidence            38999999999999999999999999999999988           89999999999999999999999998877664

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

Probab=99.13  E-value=1.7e-10  Score=106.44  Aligned_cols=76  Identities=18%  Similarity=0.272  Sum_probs=69.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhc-CCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFR-PFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~-~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+.+||.|+|+++.|.+|++||. +.|+|..|.|..|.+    ||++|||.|||.++|.+++|++.||-+.+.++|++++
T Consensus        44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~----GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vK  119 (608)
T KOG4212|consen   44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDES----GKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVK  119 (608)
T ss_pred             cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccC----CCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEe
Confidence            45699999999999999999998 579999999999986    6777799999999999999999999999999999876


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      -
T Consensus       120 E  120 (608)
T KOG4212|consen  120 E  120 (608)
T ss_pred             c
Confidence            3

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

Probab=99.12  E-value=1.3e-10  Score=109.53  Aligned_cols=63  Identities=27%  Similarity=0.395  Sum_probs=57.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL  197 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L  197 (214)
                      ..||||.|||+++|+++|.+.|++||.|..+.|+.++.+   |.++|+|||.|.+...|.+||++.
T Consensus       292 ~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T---~~skGtAFv~Fkt~~~~~~ci~~A  354 (678)
T KOG0127|consen  292 GKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDT---GHSKGTAFVKFKTQIAAQNCIEAA  354 (678)
T ss_pred             cceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCC---CCcccceEEEeccHHHHHHHHHhc
Confidence            489999999999999999999999999999999999844   566679999999999999999865

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

Probab=99.12  E-value=7.4e-11  Score=103.25  Aligned_cols=67  Identities=30%  Similarity=0.433  Sum_probs=62.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      .++||||-|....+|+|++.+|++||.|.+|.+.+...    |.+||||||.|.+..+|+.||.+|+|...
T Consensus        19 drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~d----g~sKGCAFVKf~s~~eAqaAI~aLHgSqT   85 (371)
T KOG0146|consen   19 DRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPD----GNSKGCAFVKFSSHAEAQAAINALHGSQT   85 (371)
T ss_pred             chhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCC----CCCCCceEEEeccchHHHHHHHHhccccc
Confidence            67999999999999999999999999999999999875    66777999999999999999999999754

>PF13893 RRM_5: RNA recognition motif

Probab=99.10  E-value=2.8e-10  Score=76.51  Aligned_cols=55  Identities=24%  Similarity=0.391  Sum_probs=48.7

Q ss_pred             HHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          149 VAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       149 L~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      |.++|++||.|.++++..++    ++    +|||+|.+.++|+.|++.|||..+.++++++++
T Consensus         1 L~~~f~~fG~V~~i~~~~~~----~~----~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~   55 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK----RG----FAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSY   55 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS----TT----EEEEEESSHHHHHHHHHHHTTSEETTEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC----CC----EEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            67899999999999997775    13    999999999999999999999999999998764

(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 ....

>smart00361 RRM_1 RNA recognition motif

Probab=99.10  E-value=3.1e-10  Score=80.08  Aligned_cols=62  Identities=11%  Similarity=0.041  Sum_probs=51.5

Q ss_pred             HHHHHHhhc----CCCCeEEEE-EeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          146 RREVAHIFR----PFVGYKEVR-LVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       146 e~eL~~lF~----~fG~i~~vr-l~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      +++|+++|+    +||.|.+|. ++.++... .|.++|||||+|.+.++|++|++.|||..+.++++.
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~-~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~   68 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGY-ENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVK   68 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCC-CCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            578889998    999999995 66665221 145667999999999999999999999999998875

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

Probab=99.03  E-value=9.9e-10  Score=101.45  Aligned_cols=71  Identities=17%  Similarity=0.183  Sum_probs=64.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..++|||.|||+++||.-|++-|..||.|+.+.|+..      |++||  .|.|.++++|+.|+..|+|..|.++-|++
T Consensus       535 Ka~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~------GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V  605 (608)
T KOG4212|consen  535 KACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMEN------GKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKV  605 (608)
T ss_pred             cccEEEEecCCccccHHHHHHHHHhccceehhhhhcc------CCccc--eEEecCHHHHHHHHHHhccCcccCceeee
Confidence            3789999999999999999999999999999988544      66666  89999999999999999999999988764

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

Probab=99.00  E-value=4.4e-10  Score=109.22  Aligned_cols=74  Identities=22%  Similarity=0.388  Sum_probs=70.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .++|||||.|+.+++|.||..+|+.||.|.+|.|+..+     |    ||||....+.+|++|+.+|+.+.+..+-|+|.
T Consensus       420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R-----~----cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~  490 (894)
T KOG0132|consen  420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPR-----G----CAFIKMVRRQDAEKALQKLSNVKVADKTIKIA  490 (894)
T ss_pred             eeeeeeeccccchhhHHHHHHHHHhcccceeEeeccCC-----c----eeEEEEeehhHHHHHHHHHhcccccceeeEEe
Confidence            47999999999999999999999999999999998886     4    99999999999999999999999999999999


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ||-
T Consensus       491 Wa~  493 (894)
T KOG0132|consen  491 WAV  493 (894)
T ss_pred             eec
Confidence            973

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

Probab=99.00  E-value=2.7e-10  Score=100.48  Aligned_cols=69  Identities=23%  Similarity=0.314  Sum_probs=66.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|+|+||.+.|+..||+..|++||.|.+|.|+++           ++||.|+..++|..|++.|+|..+.+++|.+|
T Consensus        77 ~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd-----------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq  145 (346)
T KOG0109|consen   77 ASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD-----------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQ  145 (346)
T ss_pred             CccccccCCCCccccCHHHhhhhcccCCceeeeeecc-----------eeEEEEeeccchHHHHhcccccccccceeeee
Confidence            3789999999999999999999999999999999988           99999999999999999999999999999887

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

Probab=98.97  E-value=7.7e-10  Score=96.94  Aligned_cols=77  Identities=22%  Similarity=0.341  Sum_probs=69.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +.+.|||--||.+..+.||..+|-+||.|++.++..|+.+   ..+|-|+||.|+++.+|++||.+|||+.|.-+-+++|
T Consensus       284 eGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRAT---NQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQ  360 (371)
T KOG0146|consen  284 EGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRAT---NQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQ  360 (371)
T ss_pred             CcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhcc---ccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhh
Confidence            4799999999999999999999999999999999999843   3456699999999999999999999999987777665

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

Probab=98.96  E-value=1.3e-09  Score=92.01  Aligned_cols=74  Identities=20%  Similarity=0.298  Sum_probs=65.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCC-CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~f-G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ...+||..+|+.+-+.+|..+|.+| |.+..+||-+++.+   |++||||||+|++++.|+-|-+.||+|.+..+-.+
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrT---GNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~  123 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRT---GNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLE  123 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhhcCCeeEEEEeeccccc---CCcCceEEEEeccHHHHHHHHHHhhhhhhhhheee
Confidence            5689999999999999999999999 77778888777643   88999999999999999999999999998876543

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

Probab=98.94  E-value=1.3e-09  Score=98.41  Aligned_cols=75  Identities=17%  Similarity=0.213  Sum_probs=69.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .+.|||.-|++-+++++|.-||+.||.|+.|.++.++.+   |.+.-||||+|++.+++++|.-.|++..|.++-|-+
T Consensus       239 eNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~kt---gdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHV  313 (479)
T KOG0415|consen  239 ENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKT---GDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHV  313 (479)
T ss_pred             cceEEEEecCCcccccchhhHHhhcccceeeeEEecccc---cchhheeeeeecchhhHHHHHhhhcceeeccceEEe
Confidence            789999999999999999999999999999999999844   888889999999999999999999999999887643

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

Probab=98.91  E-value=1.3e-09  Score=98.84  Aligned_cols=75  Identities=16%  Similarity=0.248  Sum_probs=68.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      -++||||.+.+...|+.|+..|.+||.|+++.+-.|.-+   |+-||||||+|+-+|.|+-|++.|||..+.++-+++
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T---~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKV  187 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPAT---GKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKV  187 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCCCcceeeccccccc---ccccceEEEEEeCcHHHHHHHHHhccccccCccccc
Confidence            479999999999999999999999999999999999833   555669999999999999999999999999987765

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

Probab=98.90  E-value=2.6e-09  Score=92.87  Aligned_cols=76  Identities=20%  Similarity=0.200  Sum_probs=70.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ..+|+|.|||..|++++|++||..||.++.+-|..++.    |+++|+|=|.|...++|+.|++.+||..|.++||++..
T Consensus        83 ~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~----G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~  158 (243)
T KOG0533|consen   83 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRA----GRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEI  158 (243)
T ss_pred             cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCC----CCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEE
Confidence            57899999999999999999999999999998988886    56677999999999999999999999999999998763

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

Probab=98.90  E-value=1.3e-09  Score=105.21  Aligned_cols=79  Identities=29%  Similarity=0.427  Sum_probs=70.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|+|.|||+..+-++++.||..||.|++|||+....+   +...|||||+|.++.+|.+|+++|..+.|+++-.-|+|
T Consensus       613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k---~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEw  689 (725)
T KOG0110|consen  613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGK---GAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEW  689 (725)
T ss_pred             cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcc---hhhccceeeeccCcHHHHHHHHhhcccceechhhheeh
Confidence            579999999999999999999999999999999988422   22334999999999999999999999999999999988


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus       690 A~  691 (725)
T KOG0110|consen  690 AK  691 (725)
T ss_pred             hc
Confidence            64

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

Probab=98.90  E-value=2.4e-09  Score=103.29  Aligned_cols=78  Identities=21%  Similarity=0.235  Sum_probs=68.4

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++|||.||++++|.++|..+|...|.|+++.|...+.....=.++||+||+|.++++|+.|+++|||+.|.+..+.++
T Consensus       516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk  593 (725)
T KOG0110|consen  516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELK  593 (725)
T ss_pred             hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEE
Confidence            449999999999999999999999999999988877332223456899999999999999999999999999998875

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

Probab=98.88  E-value=1.8e-09  Score=89.75  Aligned_cols=76  Identities=17%  Similarity=0.291  Sum_probs=67.2

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEE-EEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEV-RLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~v-rl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +..|||+||.++++|..|.++|+.||.+... .++++..+   |+++||+||.|.+.+.+.+|++.|||..++-+|+.+.
T Consensus        96 ganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~t---g~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~  172 (203)
T KOG0131|consen   96 GANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDT---GNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVS  172 (203)
T ss_pred             cccccccccCcchhHHHHHHHHHhccccccCCcccccccC---CCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEE
Confidence            5799999999999999999999999998653 56666643   6788899999999999999999999999999998753

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

Probab=98.87  E-value=3.9e-09  Score=94.95  Aligned_cols=75  Identities=17%  Similarity=0.329  Sum_probs=67.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHH-hCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA-LQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~-LnG~~l~~~P~~~  209 (214)
                      ..+||||++|-..++|.+|++.|.+||+|+.+++...+     +    ||||+|.+++.|+.|.+. +|-..|.+.-+.|
T Consensus       227 ~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~-----~----CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i  297 (377)
T KOG0153|consen  227 SIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK-----G----CAFVTFTTREAAEKAAEKSFNKLVINGFRLKI  297 (377)
T ss_pred             ceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc-----c----cceeeehhhHHHHHHHHhhcceeeecceEEEE
Confidence            45899999999999999999999999999999998886     4    999999999999999865 6667889999999


Q ss_pred             ccCCC
Q 028098          210 QSGST  214 (214)
Q Consensus       210 ~~~~~  214 (214)
                      +||++
T Consensus       298 ~Wg~~  302 (377)
T KOG0153|consen  298 KWGRP  302 (377)
T ss_pred             EeCCC
Confidence            99974

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

Probab=98.79  E-value=2.2e-09  Score=91.70  Aligned_cols=76  Identities=16%  Similarity=0.094  Sum_probs=70.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ...||||+|+-..++|+-|.+||-+.|.|..|.|+.++.    +++| ||||+|.++.+..-|++.|||..+...+++++
T Consensus         8 ~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d----~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~   82 (267)
T KOG4454|consen    8 MDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQD----QEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRT   82 (267)
T ss_pred             hhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCcc----CCCc-eeeeecccccchhhhhhhcccchhccchhhcc
Confidence            367999999999999999999999999999999999875    4555 99999999999999999999999999999987


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      .
T Consensus        83 ~   83 (267)
T KOG4454|consen   83 L   83 (267)
T ss_pred             c
Confidence            3

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

Probab=98.78  E-value=1.3e-08  Score=93.58  Aligned_cols=70  Identities=21%  Similarity=0.323  Sum_probs=65.1

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ..||||   +++||..|.++|+++|.|.++|+..+- +     +.|||||.|.++++|++||++||...|+++|++|-|
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t-----slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~   71 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T-----SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMW   71 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C-----ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeeh
Confidence            479999   999999999999999999999999997 4     345999999999999999999999999999999876

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

Probab=98.77  E-value=1.8e-08  Score=97.46  Aligned_cols=80  Identities=19%  Similarity=0.218  Sum_probs=71.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCC---CCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE---SRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k---~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      .+.|||+||++.++++.|...|..||.|..|+++.-+   .+++   ..-|+||.|-++.+|+.|++.|||..+...+++
T Consensus       174 TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r---~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K  250 (877)
T KOG0151|consen  174 TTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRR---ERNCGFVAFMNRADAERALKELQGIIVMEYEMK  250 (877)
T ss_pred             ccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhcc---ccccceeeehhhhhHHHHHHHhcceeeeeeeee
Confidence            6789999999999999999999999999999988765   2222   234999999999999999999999999999999


Q ss_pred             cccCCC
Q 028098          209 YQSGST  214 (214)
Q Consensus       209 ~~~~~~  214 (214)
                      |-||++
T Consensus       251 ~gWgk~  256 (877)
T KOG0151|consen  251 LGWGKA  256 (877)
T ss_pred             eccccc
Confidence            999964

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

Probab=98.67  E-value=1.6e-08  Score=90.95  Aligned_cols=71  Identities=23%  Similarity=0.361  Sum_probs=61.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHH----hCCCeecc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA----LQVQSKVV  204 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~----LnG~~l~~  204 (214)
                      ..++|||++|+|+++++.|++.|++||+|.+|.++.++.+   |+++||+||+|.++++..+++..    |.|..|..
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t---~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~   79 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPST---GRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEP   79 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCC---CCcccccceecCCCcchheeecccccccCCccccc
Confidence            4789999999999999999999999999999999999854   67778999999999999888843    55554443

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

Probab=98.63  E-value=1.4e-07  Score=80.98  Aligned_cols=73  Identities=36%  Similarity=0.471  Sum_probs=61.0

Q ss_pred             CCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc
Q 028098          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV  204 (214)
Q Consensus       129 ~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k-~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~  204 (214)
                      ++.-+||||.+||.++.-+||..||..|-.++.+.|.... .++   -.|.+|||.|.+..+|.+|+.+|||..+.-
T Consensus        31 ~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~---~~~pvaFatF~s~q~A~aamnaLNGvrFDp  104 (284)
T KOG1457|consen   31 PGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQ---VCKPVAFATFTSHQFALAAMNALNGVRFDP  104 (284)
T ss_pred             ccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCc---cccceEEEEecchHHHHHHHHHhcCeeecc
Confidence            4457999999999999999999999999999887665442 111   134699999999999999999999998764

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

Probab=98.63  E-value=3.5e-08  Score=93.25  Aligned_cols=70  Identities=26%  Similarity=0.381  Sum_probs=63.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      +..+|+|-|||..|++++|..+|+.||+|++|+....+.    |    .+||+|.|..+|++|+++|++..+.++-++
T Consensus        74 ~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~----~----~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   74 NQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKR----G----IVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             ccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccC----c----eEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            468999999999999999999999999999988766653    4    999999999999999999999998887776

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

Probab=98.60  E-value=7.5e-08  Score=83.82  Aligned_cols=79  Identities=18%  Similarity=0.337  Sum_probs=72.7

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +...+||+|.|..+++++.|...|.+|-.+...++++++.+   |++|||+||.|.+++++..|+..|||..+..+||++
T Consensus       188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRT---gKSkgygfVSf~~pad~~rAmrem~gkyVgsrpikl  264 (290)
T KOG0226|consen  188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRT---GKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKL  264 (290)
T ss_pred             cccceeecccccccccHHHHHHHHHhccchhhccccccccc---cccccceeeeecCHHHHHHHHHhhcccccccchhHh
Confidence            34579999999999999999999999999999999999743   899999999999999999999999999999999987


Q ss_pred             cc
Q 028098          210 QS  211 (214)
Q Consensus       210 ~~  211 (214)
                      .+
T Consensus       265 Rk  266 (290)
T KOG0226|consen  265 RK  266 (290)
T ss_pred             hh
Confidence            53

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

Probab=98.53  E-value=2.9e-07  Score=78.67  Aligned_cols=75  Identities=31%  Similarity=0.534  Sum_probs=67.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec-cccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV-VAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~-~~P~~~  209 (214)
                      ++.+||+.|||..++.+.|..+|.+|...++||++..+.    +    .|||+|.+...|..|.++|+|..|. ...|+|
T Consensus       145 pn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~----~----iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i  216 (221)
T KOG4206|consen  145 PNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRS----G----IAFVEFLSDRQASAAQQALQGFKITKKNTMQI  216 (221)
T ss_pred             CceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCCC----c----eeEEecchhhhhHHHhhhhccceeccCceEEe
Confidence            488999999999999999999999999999999999763    3    9999999999999999999999887 777777


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ...+
T Consensus       217 ~~a~  220 (221)
T KOG4206|consen  217 TFAK  220 (221)
T ss_pred             cccC
Confidence            6554

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

Probab=98.51  E-value=8.5e-08  Score=87.28  Aligned_cols=167  Identities=11%  Similarity=0.091  Sum_probs=108.9

Q ss_pred             CCCCCCCCCCCCCcccccccccc--cccccCCCCCCCccccchhhhhh-ccCCC--CCCCCCCCCC-CCCCCCCCCCCCC
Q 028098           23 SKRPRTDYDVPSGHELSSYYTRD--DDRGALRGMRDTDSLGASYDRYL-RSAQI--SSYSGGQSAR-HMSGGMPSRPVDD   96 (214)
Q Consensus        23 ~kr~~~~~~~~~~~~~~~y~~~~--~~r~~~~~~~~~~~~~~~~dr~~-~~~~~--~~~~~~~~~r-~~~gg~~G~~~~~   96 (214)
                      ..|.++--.||-.+....|+.-.  +-|..|..+..+|+|+.++|--+ .-++|  +.|--.|++. +.. .|||.-+.+
T Consensus       104 ~qrqqALaiMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlE-qMNg~mlGG  182 (544)
T KOG0124|consen  104 MQRQQALAIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALE-QMNGQMLGG  182 (544)
T ss_pred             HHHHHHHHHhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHH-HhccccccC
Confidence            34444433445444445554433  45888999999999999999765 33333  2332234432 333 567655544


Q ss_pred             CCccccCCCCCCCCCCCCCCCCCCCCCCCC-CC----C--CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCC
Q 028098           97 PRIVGIGGMDPGPSAKDRALGLGGGRSEVP-LP----P--DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKES  169 (214)
Q Consensus        97 ~~~~~~gg~~~~~~~~~r~~g~~~~~p~~~-~p----~--~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~  169 (214)
                      |.+-.+               .-+..|... ..    .  ..-++|||..+.++.+|+||+.+|+-||.|+.|.|.++.+
T Consensus       183 RNiKVg---------------rPsNmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt  247 (544)
T KOG0124|consen  183 RNIKVG---------------RPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPT  247 (544)
T ss_pred             cccccc---------------CCCCCcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCC
Confidence            432211               000111100 00    0  1247999999999999999999999999999999999884


Q ss_pred             CCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          170 RHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       170 ~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      .   +.-|||+|++|.+..+-..|+..||=+.|.+.-++
T Consensus       248 ~---~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLR  283 (544)
T KOG0124|consen  248 G---RGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLR  283 (544)
T ss_pred             C---CCccceeeEEeccccchHHHhhhcchhhcccceEe
Confidence            3   34566999999999999999998887766665443

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

Probab=98.51  E-value=2.1e-07  Score=83.79  Aligned_cols=150  Identities=15%  Similarity=0.172  Sum_probs=93.4

Q ss_pred             CcccccccccccccccCCCCCCCccccchhhhhhccCCC--CCCCCCCCC-CCCCCCCCCCCCCCCCccccCCCCCCCCC
Q 028098           35 GHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQI--SSYSGGQSA-RHMSGGMPSRPVDDPRIVGIGGMDPGPSA  111 (214)
Q Consensus        35 ~~~~~~y~~~~~~r~~~~~~~~~~~~~~~~dr~~~~~~~--~~~~~~~~~-r~~~gg~~G~~~~~~~~~~~gg~~~~~~~  111 (214)
                      ..+.+.=-++|-| ..|-.|.|..++.+...  .|+.++  ..|...++. +.+.  ..-+.++.+.+-.          
T Consensus        15 sw~ttee~Lr~yf-~~~Gev~d~~vm~d~~t--~rsrgFgfv~f~~~~~v~~vl~--~~~h~~dgr~ve~----------   79 (311)
T KOG4205|consen   15 SWETTEESLREYF-SQFGEVTDCVVMRDPST--GRSRGFGFVTFATPEGVDAVLN--ARTHKLDGRSVEP----------   79 (311)
T ss_pred             CccccHHHHHHHh-cccCceeeEEEeccCCC--CCcccccceecCCCcchheeec--ccccccCCccccc----------
Confidence            3344444445545 66778888888876555  466553  455543332 2222  2233333332211          


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHH
Q 028098          112 KDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA  191 (214)
Q Consensus       112 ~~r~~g~~~~~p~~~~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~  191 (214)
                       .+...-..+.  ...-.....+|||++||.++++++|++.|.+||.|..+.++.|+.+   .++++|+||.|.+++.+.
T Consensus        80 -k~av~r~~~~--~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~---~~~rgFgfv~~~~e~sVd  153 (311)
T KOG4205|consen   80 -KRAVSREDQT--KVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTT---SRPRGFGFVTFDSEDSVD  153 (311)
T ss_pred             -eeccCccccc--ccccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccc---cccccceeeEeccccccc
Confidence             1111100000  0000113679999999999999999999999999999999998844   456679999999999999


Q ss_pred             HHHH----HhCCCeeccc
Q 028098          192 TAMD----ALQVQSKVVA  205 (214)
Q Consensus       192 ~Al~----~LnG~~l~~~  205 (214)
                      +++.    .|+|+.+.++
T Consensus       154 kv~~~~f~~~~gk~vevk  171 (311)
T KOG4205|consen  154 KVTLQKFHDFNGKKVEVK  171 (311)
T ss_pred             eecccceeeecCceeeEe
Confidence            9984    3666665543

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

Probab=98.50  E-value=9.6e-08  Score=82.02  Aligned_cols=66  Identities=27%  Similarity=0.505  Sum_probs=57.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                      ...||||.||..+|+|++|+.+|+.|-.+..++|...-     |.  -.|||+|++.+.|..|+..|+|..|.
T Consensus       209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~-----g~--~vaf~~~~~~~~at~am~~lqg~~~s  274 (284)
T KOG1457|consen  209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARG-----GM--PVAFADFEEIEQATDAMNHLQGNLLS  274 (284)
T ss_pred             hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCC-----Cc--ceEeecHHHHHHHHHHHHHhhcceec
Confidence            35799999999999999999999999999888876553     21  17899999999999999999998874

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

Probab=98.50  E-value=1.7e-07  Score=81.23  Aligned_cols=74  Identities=16%  Similarity=0.198  Sum_probs=67.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ...+||+|+.+.+|-+++...|+.||.|..|.++.++..   |.+|||+||+|.+.+.++.|+. |||..|.++.+..
T Consensus       101 ~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~---~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~v  174 (231)
T KOG4209|consen  101 APSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFR---GHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEV  174 (231)
T ss_pred             CceEEEeccccccccchhhheeeccCCccceeeeccccC---CCcceeEEEecccHhhhHHHhh-cCCccccccccee
Confidence            579999999999999999999999999999999999843   5677899999999999999998 9999998887654

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

Probab=98.43  E-value=2.9e-07  Score=85.79  Aligned_cols=72  Identities=28%  Similarity=0.473  Sum_probs=58.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHH----hCCCeeccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA----LQVQSKVVA  205 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~----LnG~~l~~~  205 (214)
                      ...+|||+|||+++++++|+++|.+||.|++.+|....   ++++...||||+|.+.++++.||++    +.+..+.+.
T Consensus       287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~---~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Ve  362 (419)
T KOG0116|consen  287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRS---PGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVE  362 (419)
T ss_pred             cccceEeecCCCCCCHHHHHHHHhhcccccccceEEec---cCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEE
Confidence            34669999999999999999999999999999887765   2233336999999999999999976    555555443

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

Probab=98.42  E-value=5e-07  Score=81.54  Aligned_cols=79  Identities=16%  Similarity=0.219  Sum_probs=69.5

Q ss_pred             CCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeE--------EEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC
Q 028098          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYK--------EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ  200 (214)
Q Consensus       129 ~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~--------~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~  200 (214)
                      +..++.|||.|||.++|-+|+.++|+.||.|.        .|+|..+..    |++||=|.+.|...++.+-|+..|++.
T Consensus       131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~----G~lKGDaLc~y~K~ESVeLA~~ilDe~  206 (382)
T KOG1548|consen  131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ----GKLKGDALCCYIKRESVELAIKILDED  206 (382)
T ss_pred             cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC----CCccCceEEEeecccHHHHHHHHhCcc
Confidence            34577899999999999999999999999986        378888875    788889999999999999999999999


Q ss_pred             eeccccccccc
Q 028098          201 SKVVAPNQYQS  211 (214)
Q Consensus       201 ~l~~~P~~~~~  211 (214)
                      .|.+.-|+++-
T Consensus       207 ~~rg~~~rVer  217 (382)
T KOG1548|consen  207 ELRGKKLRVER  217 (382)
T ss_pred             cccCcEEEEeh
Confidence            98888777654

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

Probab=98.40  E-value=3.9e-07  Score=86.90  Aligned_cols=76  Identities=16%  Similarity=0.240  Sum_probs=66.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCC--CCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE--SRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k--~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .+.|||.+|...+...+|+.||++||.|+-.+++++-  .+-+.     |+||++.+.++|.+||+.|+-+.|+++.|.+
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRC-----YGfVTMSts~eAtkCI~hLHrTELHGrmISV  479 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARC-----YGFVTMSTSAEATKCIEHLHRTELHGRMISV  479 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcce-----eEEEEecchHHHHHHHHHhhhhhhcceeeee
Confidence            5789999999999999999999999999999999875  22222     9999999999999999999999999888876


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      -+.
T Consensus       480 Eka  482 (940)
T KOG4661|consen  480 EKA  482 (940)
T ss_pred             eec
Confidence            543

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

Probab=98.36  E-value=2.5e-07  Score=79.27  Aligned_cols=62  Identities=19%  Similarity=0.381  Sum_probs=57.8

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      .+||++||+.+.+++|.+||..||.+.+|.|...           |+||+|++..+|..|+..|||..|.+.-
T Consensus         3 rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~g-----------f~fv~fed~rda~Dav~~l~~~~l~~e~   64 (216)
T KOG0106|consen    3 RVYIGRLPYRARERDVERFFKGYGKIPDADMKNG-----------FGFVEFEDPRDADDAVHDLDGKELCGER   64 (216)
T ss_pred             ceeecccCCccchhHHHHHHhhccccccceeecc-----------cceeccCchhhhhcccchhcCceeccee
Confidence            7899999999999999999999999999987554           9999999999999999999999998764

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

Probab=98.13  E-value=9.6e-06  Score=73.53  Aligned_cols=78  Identities=18%  Similarity=0.238  Sum_probs=68.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEE--------EEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKE--------VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~--------vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      .+.+|||-+||..+++++|.++|.+++.|+.        +.|-+++.+   +++|+=|.|.|+++.+|+.|+..+++..+
T Consensus        65 ~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT---~~~KGeatvS~~D~~~akaai~~~agkdf  141 (351)
T KOG1995|consen   65 DNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKET---GAPKGEATVSYEDPPAAKAAIEWFAGKDF  141 (351)
T ss_pred             ccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccc---cCcCCceeeeecChhhhhhhhhhhccccc
Confidence            3679999999999999999999999999863        455556533   78999999999999999999999999999


Q ss_pred             ccccccccc
Q 028098          203 VVAPNQYQS  211 (214)
Q Consensus       203 ~~~P~~~~~  211 (214)
                      +..+|+|..
T Consensus       142 ~gn~ikvs~  150 (351)
T KOG1995|consen  142 CGNTIKVSL  150 (351)
T ss_pred             cCCCchhhh
Confidence            998887754

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

Probab=98.10  E-value=8.3e-07  Score=83.97  Aligned_cols=77  Identities=19%  Similarity=0.275  Sum_probs=70.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ...|+|+--|+...+..+|.++|+.+|.|..|+++.|+..   +.+||.|||+|.+.+....|| +|.|..+.+.|+++|
T Consensus       178 d~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s---~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq  253 (549)
T KOG0147|consen  178 DQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNS---RRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQ  253 (549)
T ss_pred             hHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccc---hhhcceeEEEEecccchhhHh-hhcCCcccCceeEec
Confidence            4589999999999999999999999999999999999833   456779999999999999999 999999999999987


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      .
T Consensus       254 ~  254 (549)
T KOG0147|consen  254 L  254 (549)
T ss_pred             c
Confidence            4

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

Probab=98.01  E-value=4.1e-06  Score=79.46  Aligned_cols=79  Identities=24%  Similarity=0.384  Sum_probs=71.2

Q ss_pred             CCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       129 ~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ++..+++||++||...++.+++++...||.++..+++.+...   |.+|||||.+|-++.-...|++.|||..+.+..+.
T Consensus       286 ~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~---g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lv  362 (500)
T KOG0120|consen  286 PDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSAT---GNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLV  362 (500)
T ss_pred             ccccchhhhccCcCccCHHHHHHHHHhcccchhheeeccccc---ccccceeeeeeeCCcchhhhhcccchhhhcCceeE
Confidence            345689999999999999999999999999999999999854   67788999999999999999999999999988776


Q ss_pred             cc
Q 028098          209 YQ  210 (214)
Q Consensus       209 ~~  210 (214)
                      .|
T Consensus       363 vq  364 (500)
T KOG0120|consen  363 VQ  364 (500)
T ss_pred             ee
Confidence            55

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

Probab=97.96  E-value=2.3e-05  Score=59.96  Aligned_cols=59  Identities=24%  Similarity=0.359  Sum_probs=40.0

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ  200 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~  200 (214)
                      ..|.|.+++..++.++|+++|++||.|..|.+.....         -|||-|.+++.|+.|++.+.-.
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~---------~g~VRf~~~~~A~~a~~~~~~~   60 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDT---------EGYVRFKTPEAAQKALEKLKEA   60 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-S---------EEEEEESS---HHHHHHHHHHT
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCC---------EEEEEECCcchHHHHHHHHHhc
Confidence            4789999999999999999999999999999887753         7999999999999999876544

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

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

Probab=97.95  E-value=2.1e-05  Score=73.89  Aligned_cols=59  Identities=19%  Similarity=0.380  Sum_probs=49.8

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHH
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~  196 (214)
                      ..-|-+.+|||+||++||.++|+.++ |..+.+++..     |++.|=|||+|.+++++++|++.
T Consensus        10 ~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~-----Gr~sGeA~Ve~~seedv~~Alkk   68 (510)
T KOG4211|consen   10 AFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRN-----GRPSGEAYVEFTSEEDVEKALKK   68 (510)
T ss_pred             ceEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccC-----CCcCcceEEEeechHHHHHHHHh
Confidence            45677889999999999999999985 7777666664     55666999999999999999964

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

Probab=97.93  E-value=5.2e-05  Score=57.42  Aligned_cols=69  Identities=19%  Similarity=0.222  Sum_probs=58.3

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCC--CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPF--VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV  204 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~f--G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~  204 (214)
                      +||-|.|+|...|.++|.+++...  |.+.-+-|+.|-.+   +-..|||||.|.+++.|..-.+.++|.....
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~---~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~   72 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKN---KCNLGYAFVNFTSPQAAIRFYKAFNGKKWPN   72 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccC---CCceEEEEEEcCCHHHHHHHHHHHcCCcccc
Confidence            699999999999999999888753  66777888888632   3456799999999999999999999988753

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

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=97.87  E-value=9.9e-06  Score=72.22  Aligned_cols=77  Identities=26%  Similarity=0.324  Sum_probs=68.5

Q ss_pred             CCEEE-EcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLF-VEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLf-VgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +.++| |++|++++++++|+..|..+|.|..++++.++..   |.++||+||+|.+..++..|+.. +...+...|+.+-
T Consensus       184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s---~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  259 (285)
T KOG4210|consen  184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEES---GDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLE  259 (285)
T ss_pred             cccceeecccccccchHHHhhhccCcCcceeeccCCCCCc---cchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccc
Confidence            45555 9999999999999999999999999999999854   78999999999999999999987 8899999988876


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      .+
T Consensus       260 ~~  261 (285)
T KOG4210|consen  260 ED  261 (285)
T ss_pred             cC
Confidence            54

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

Probab=97.82  E-value=1e-05  Score=69.38  Aligned_cols=68  Identities=21%  Similarity=0.218  Sum_probs=59.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..+.|+|.+|+..+.+.+|.+.|.++|.+..+.+..       +    ++||+|.+.++|..|++.|+|..+.+.++..
T Consensus        98 s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~~-------~----~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~  165 (216)
T KOG0106|consen   98 THFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDARR-------N----FAFVEFSEQEDAKRALEKLDGKKLNGRRISV  165 (216)
T ss_pred             ccceeeeccchhhhhHHHHhhhhcccCCCchhhhhc-------c----ccceeehhhhhhhhcchhccchhhcCceeee
Confidence            467899999999999999999999999985555411       2    8999999999999999999999999888764

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

Probab=97.74  E-value=7.7e-05  Score=68.99  Aligned_cols=71  Identities=13%  Similarity=0.194  Sum_probs=65.0

Q ss_pred             CCEEEEcCCCCc-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~-~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +..|.|.||... +|.+.|-.||+-||+|..|+|..++..        -|.|++.+...|+-|++.|+|..++++++++.
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd--------~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt  368 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKD--------NALIQMSDGQQAQLAMEHLEGHKLYGKKLRVT  368 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCc--------ceeeeecchhHHHHHHHHhhcceecCceEEEe
Confidence            689999999765 899999999999999999999998732        69999999999999999999999999998864

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

Probab=97.67  E-value=0.0003  Score=68.83  Aligned_cols=73  Identities=21%  Similarity=0.265  Sum_probs=61.3

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeE-EEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYK-EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~-~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +.|-|.|+|++++-+||.++|..|--+- +|++..+..    |++.|-|.|.|+++++|..|..-|++.+|.-+-+.+
T Consensus       868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~----G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l  941 (944)
T KOG4307|consen  868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDD----GVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSL  941 (944)
T ss_pred             eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCC----CCcccceeEeecCHHHHHhhhhccccCcccceeEEE
Confidence            4888999999999999999999996553 455555543    777789999999999999999999999988766543

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

Probab=97.67  E-value=7.4e-05  Score=69.38  Aligned_cols=69  Identities=23%  Similarity=0.276  Sum_probs=57.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeC---CCCCCCCCc-------ccEEEEEecCHHHHHHHHHHhCC
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK---ESRHPGGDP-------LILCFVDFVSPAHAATAMDALQV  199 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~---k~~~~gG~~-------kg~aFVeF~~~~~A~~Al~~LnG  199 (214)
                      +++||.+.|||.+-.-+.|.+||+.+|.|+.|||..-   ...-++..+       |-||+|+|+..+.|.+|.+.|+-
T Consensus       230 ~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~  308 (484)
T KOG1855|consen  230 PSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP  308 (484)
T ss_pred             ccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence            5899999999999888999999999999999998765   211122333       57999999999999999998853

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

Probab=97.64  E-value=0.00021  Score=67.30  Aligned_cols=61  Identities=23%  Similarity=0.407  Sum_probs=49.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEE-EEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHH
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~-vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~  196 (214)
                      ...|-+.+||+.||++||.++|+..--+.. +.|+.++.    |++.|=|||+|++.+.|++||..
T Consensus       103 d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~r----gR~tGEAfVqF~sqe~ae~Al~r  164 (510)
T KOG4211|consen  103 DGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQR----GRPTGEAFVQFESQESAEIALGR  164 (510)
T ss_pred             CceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCC----CCcccceEEEecCHHHHHHHHHH
Confidence            458889999999999999999998754444 55666654    44556999999999999999953

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

Probab=97.53  E-value=0.00041  Score=51.39  Aligned_cols=66  Identities=18%  Similarity=0.205  Sum_probs=44.6

Q ss_pred             CEEEEcCCCCcCCHHH----HHHhhcCCCC-eEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccc
Q 028098          133 STLFVEGLPSDCSRRE----VAHIFRPFVG-YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPN  207 (214)
Q Consensus       133 ~tLfVgnLp~~~te~e----L~~lF~~fG~-i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~  207 (214)
                      +.|+|.|||.+.+...    |+.|+..+|. |.+|   ..      +    .|+|.|.+++.|+.|.+.|+|-.+.+.-|
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v---~~------~----tAilrF~~~~~A~RA~KRmegEdVfG~kI   69 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV---SG------G----TAILRFPNQEFAERAQKRMEGEDVFGNKI   69 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-----T------T-----EEEEESSHHHHHHHHHHHTT--SSSS--
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE---eC------C----EEEEEeCCHHHHHHHHHhhcccccccceE
Confidence            4799999999988776    5577778876 3333   11      3    89999999999999999999998888877


Q ss_pred             cccc
Q 028098          208 QYQS  211 (214)
Q Consensus       208 ~~~~  211 (214)
                      .++.
T Consensus        70 ~v~~   73 (90)
T PF11608_consen   70 SVSF   73 (90)
T ss_dssp             EEES
T ss_pred             EEEE
Confidence            6654

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

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

Probab=97.44  E-value=0.00031  Score=47.28  Aligned_cols=52  Identities=17%  Similarity=0.335  Sum_probs=42.3

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHH
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM  194 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al  194 (214)
                      ++|-|.+.+.+..+.-| ..|.+||+|.++.+.....         +.||.|.++.+|++|+
T Consensus         2 ~wI~V~Gf~~~~~~~vl-~~F~~fGeI~~~~~~~~~~---------~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAEEVL-EHFASFGEIVDIYVPESTN---------WMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHHHHH-HHHHhcCCEEEEEcCCCCc---------EEEEEECCHHHHHhhC
Confidence            57889999988775555 5788899999998873322         8999999999999985

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

Probab=97.43  E-value=9.7e-05  Score=68.34  Aligned_cols=53  Identities=17%  Similarity=0.330  Sum_probs=48.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHH
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAAT  192 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~  192 (214)
                      +++.|.++|||++|+|+||.+|+.+||.|..+.+...+.         .||++|.+.++|..
T Consensus        27 pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGkn---------QAflem~d~~sAvt   79 (492)
T KOG1190|consen   27 PSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGKN---------QAFLEMADEESAVT   79 (492)
T ss_pred             CcceeEeccCCccccHHHHHHhcccccceeeeeeeccch---------hhhhhhcchhhhhh
Confidence            478999999999999999999999999999998888764         79999999998776

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

Probab=97.40  E-value=0.00024  Score=68.05  Aligned_cols=70  Identities=19%  Similarity=0.207  Sum_probs=58.3

Q ss_pred             CCEEEEcCCCCc------CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          132 SSTLFVEGLPSD------CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       132 s~tLfVgnLp~~------~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      .+.|+|.|+|--      .-..-|..+|+++|.+..+.++.+..    |..|||.|++|.+..+|+.|++.|||+.|.-.
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~----ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldkn  133 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE----GGTKGYLFVEYASMRDAKKAVKSLNGKRLDKN  133 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc----CCeeeEEEEEecChhhHHHHHHhcccceeccc
Confidence            478999999853      22334678999999999999998874    45788999999999999999999999988643

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

Probab=97.32  E-value=9.5e-05  Score=73.36  Aligned_cols=76  Identities=20%  Similarity=0.263  Sum_probs=64.8

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ...|||.|+|+.+|.++|+.+|..+|.+++++++..+.    |+|||.|||.|.++.+|..+....+...+.-.-..+|.
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~----gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~v  811 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRA----GKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQV  811 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhc----cccccceeccCCCcchhhhhcccchhhhhhhcCccccc
Confidence            56899999999999999999999999999999888875    78899999999999999999877666555554444443

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

Probab=97.31  E-value=0.00061  Score=64.55  Aligned_cols=65  Identities=23%  Similarity=0.323  Sum_probs=50.8

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCccc---EEEEEecCHHHHHHHHHH
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLI---LCFVDFVSPAHAATAMDA  196 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg---~aFVeF~~~~~A~~Al~~  196 (214)
                      -+++||||+||++++|++|...|.+||.+ .|..+.+...+..=-+||   |+|..|+++.+..+-+.+
T Consensus       258 ~S~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~a  325 (520)
T KOG0129|consen  258 YSRKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSA  325 (520)
T ss_pred             cccceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHH
Confidence            47899999999999999999999999986 556664333222224677   999999999888776654

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

Probab=97.20  E-value=0.0011  Score=62.91  Aligned_cols=66  Identities=29%  Similarity=0.335  Sum_probs=57.5

Q ss_pred             CCCCCCCEEEEcCCCCcCCHHHHHHhhc-CCCCeEEEEEeeC-CCCCCCCCcccEEEEEecCHHHHHHHHHH
Q 028098          127 LPPDASSTLFVEGLPSDCSRREVAHIFR-PFVGYKEVRLVSK-ESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (214)
Q Consensus       127 ~p~~~s~tLfVgnLp~~~te~eL~~lF~-~fG~i~~vrl~~~-k~~~~gG~~kg~aFVeF~~~~~A~~Al~~  196 (214)
                      .+-|+.+|||||+||--++.+||..+|. -||.|+.|-|=.| +=|.    |||-|=|.|.+..+-.+||++
T Consensus       365 q~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KY----PkGaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  365 QPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKY----PKGAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             cccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCC----CCCcceeeecccHHHHHHHhh
Confidence            3456789999999999999999999999 7999999999888 4433    455999999999999999975

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

Probab=97.10  E-value=0.0049  Score=52.12  Aligned_cols=61  Identities=18%  Similarity=0.214  Sum_probs=55.2

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      ...+.|.+||+.-+|.+|++...+.|.|+...+..|      |    .+.|+|...|+.+-|+..|....+
T Consensus       115 e~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD------g----~GvV~~~r~eDMkYAvr~ld~~~~  175 (241)
T KOG0105|consen  115 EYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD------G----VGVVEYLRKEDMKYAVRKLDDQKF  175 (241)
T ss_pred             ceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc------c----ceeeeeeehhhHHHHHHhhccccc
Confidence            568999999999999999999999999998888777      4    899999999999999999887654

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

Probab=97.08  E-value=0.003  Score=58.35  Aligned_cols=61  Identities=28%  Similarity=0.390  Sum_probs=48.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCC----CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHH
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPF----VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~f----G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~  196 (214)
                      --.|-+.+||++|++.++.++|.+-    +..+.|.++....    |++.|=|||.|..+++|+.||..
T Consensus       161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpd----grpTGdAFvlfa~ee~aq~aL~k  225 (508)
T KOG1365|consen  161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPD----GRPTGDAFVLFACEEDAQFALRK  225 (508)
T ss_pred             ceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCC----CCcccceEEEecCHHHHHHHHHH
Confidence            3467778999999999999999743    3445666666644    56666999999999999999964

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.97  E-value=0.002  Score=58.73  Aligned_cols=82  Identities=16%  Similarity=0.216  Sum_probs=61.9

Q ss_pred             CCEEEEcCCCCcCCHHHH------HHhhcCCCCeEEEEEeeCC-CCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc
Q 028098          132 SSTLFVEGLPSDCSRREV------AHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV  204 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL------~~lF~~fG~i~~vrl~~~k-~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~  204 (214)
                      .+-+||-+||+.+..|++      .++|.+||.|+.+.+-.+- +-.+ -....-.||.|.+.++|+.||.+.+|..+.+
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~ns-t~~h~gvYITy~~kedAarcIa~vDgs~~DG  192 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNS-TASHAGVYITYSTKEDAARCIAEVDGSLLDG  192 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhccceeEEEeccccccccc-ccccceEEEEecchHHHHHHHHHhccccccC
Confidence            568999999999888873      2789999999988654433 1111 0111124999999999999999999999999


Q ss_pred             cccccccCCC
Q 028098          205 APNQYQSGST  214 (214)
Q Consensus       205 ~P~~~~~~~~  214 (214)
                      +-++-.-|-|
T Consensus       193 r~lkatYGTT  202 (480)
T COG5175         193 RVLKATYGTT  202 (480)
T ss_pred             ceEeeecCch
Confidence            9888766654

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

Probab=96.97  E-value=0.0026  Score=58.58  Aligned_cols=58  Identities=17%  Similarity=0.294  Sum_probs=51.1

Q ss_pred             CCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHH
Q 028098          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMD  195 (214)
Q Consensus       129 ~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~  195 (214)
                      +.++-.+.|.+|-..++|.+|.+..+.||.|..|.++..+.         .|.|+|++.+.|++|+.
T Consensus        28 ~~~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~~r---------~alvefedi~~akn~Vn   85 (494)
T KOG1456|consen   28 PNPSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPHKR---------QALVEFEDIEGAKNCVN   85 (494)
T ss_pred             CCCCceEEEeccccccchhHHHHHHhcCCceEEEEeccccc---------eeeeeeccccchhhhee
Confidence            34577999999999999999999999999999988776652         79999999999999984

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

Probab=96.95  E-value=0.0053  Score=45.42  Aligned_cols=55  Identities=18%  Similarity=0.409  Sum_probs=44.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln  198 (214)
                      ....+|. .|......||.+||++||.| .|..+.+.          -|||...+++.|..|+..+.
T Consensus         9 dHVFhlt-FPkeWK~~DI~qlFspfG~I-~VsWi~dT----------SAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen    9 DHVFHLT-FPKEWKTSDIYQLFSPFGQI-YVSWINDT----------SAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             CCEEEEE---TT--HHHHHHHCCCCCCE-EEEEECTT----------EEEEEECCCHHHHHHHHHHT
T ss_pred             ceEEEEe-CchHhhhhhHHHHhccCCcE-EEEEEcCC----------cEEEEeecHHHHHHHHHHhc
Confidence            4566776 99999999999999999987 77788884          79999999999999998875

; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.

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

Probab=96.60  E-value=0.0017  Score=59.32  Aligned_cols=71  Identities=10%  Similarity=0.137  Sum_probs=56.8

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCC--CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFV--GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG--~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      .-.+|||||-|.+|++||.+.....|  .|.++++..++..   |.+||||.|...+.+..++-++.|--..|++.
T Consensus        80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~N---GQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ  152 (498)
T KOG4849|consen   80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTN---GQSKGYALLVLNSDAAVKQTMEILPTKTIHGQ  152 (498)
T ss_pred             eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccC---CcccceEEEEecchHHHHHHHHhcccceecCC
Confidence            34799999999999999998888765  3456666666633   78889999999999999999988766666653

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

Probab=96.46  E-value=0.0026  Score=58.80  Aligned_cols=71  Identities=15%  Similarity=0.200  Sum_probs=53.8

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      .|-|.||.+++|.++++.||...|.|.+++|......-.--...-.|||.|.+..++..|- .|.++.+.+.
T Consensus         9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdr   79 (479)
T KOG4676|consen    9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDR   79 (479)
T ss_pred             eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeee
Confidence            8899999999999999999999999999998874311000011128999999999998885 5555554443

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

Probab=96.45  E-value=0.07  Score=49.45  Aligned_cols=71  Identities=13%  Similarity=0.184  Sum_probs=60.7

Q ss_pred             CCCEEEEcCCCCc-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~-~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +.+.+.|-+|... +.-+-|-.||..||.|..|+++..+.    |    -|.||..+....+.|+..||+..+.+.-+.+
T Consensus       286 ~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~----g----tamVemgd~~aver~v~hLnn~~lfG~kl~v  357 (494)
T KOG1456|consen  286 PGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP----G----TAMVEMGDAYAVERAVTHLNNIPLFGGKLNV  357 (494)
T ss_pred             CCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc----c----eeEEEcCcHHHHHHHHHHhccCccccceEEE
Confidence            3789999999876 46667899999999999999998874    3    8999999999999999999998776655443

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

Probab=96.44  E-value=0.012  Score=41.16  Aligned_cols=54  Identities=22%  Similarity=0.372  Sum_probs=45.7

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCC---CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPF---VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL  197 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~f---G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L  197 (214)
                      .+|+|.++.. .+.++|+.+|..|   .....|.++.|.          -|-|.|.+.+.|.+||.+|
T Consensus         6 eavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt----------ScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    6 EAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT----------SCNVVFKDEETAARALVAL   62 (62)
T ss_pred             ceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC----------cEEEEECCHHHHHHHHHcC
Confidence            4899999965 7788999999988   234688999996          6999999999999999875

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

Probab=96.33  E-value=0.012  Score=44.76  Aligned_cols=63  Identities=17%  Similarity=0.158  Sum_probs=43.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEE-------------EeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVR-------------LVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vr-------------l~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln  198 (214)
                      .+.|.|=+.|.. ....|.+.|++||.|.+..             .....     .    +--|.|+++.+|++|| .-|
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~-----N----Wi~I~Y~~~~~A~rAL-~~N   74 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGG-----N----WIHITYDNPLSAQRAL-QKN   74 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCT-----T----EEEEEESSHHHHHHHH-TTT
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCC-----C----EEEEECCCHHHHHHHH-HhC
Confidence            567888899998 5566778999999998875             22221     2    9999999999999999 456


Q ss_pred             CCeeccc
Q 028098          199 VQSKVVA  205 (214)
Q Consensus       199 G~~l~~~  205 (214)
                      |..|.+.
T Consensus        75 G~i~~g~   81 (100)
T PF05172_consen   75 GTIFSGS   81 (100)
T ss_dssp             TEEETTC
T ss_pred             CeEEcCc
Confidence            6555543

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

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

Probab=96.22  E-value=0.012  Score=47.64  Aligned_cols=51  Identities=20%  Similarity=0.180  Sum_probs=43.4

Q ss_pred             HHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          148 EVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       148 eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +|.+.|.+||.+.=||++.+           .-+|.|.+-++|.+|+ .|+|.+++++.++++
T Consensus        52 ~ll~~~~~~GevvLvRfv~~-----------~mwVTF~dg~sALaal-s~dg~~v~g~~l~i~  102 (146)
T PF08952_consen   52 ELLQKFAQYGEVVLVRFVGD-----------TMWVTFRDGQSALAAL-SLDGIQVNGRTLKIR  102 (146)
T ss_dssp             HHHHHHHCCS-ECEEEEETT-----------CEEEEESSCHHHHHHH-HGCCSEETTEEEEEE
T ss_pred             HHHHHHHhCCceEEEEEeCC-----------eEEEEECccHHHHHHH-ccCCcEECCEEEEEE
Confidence            67788999999988888876           4799999999999998 789999998887764

; PDB: 1UFW_A 2DNR_A.

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

Probab=96.04  E-value=0.016  Score=55.48  Aligned_cols=58  Identities=17%  Similarity=0.169  Sum_probs=44.8

Q ss_pred             HHHhhcCCCCeEEEEEeeC-CCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccc
Q 028098          149 VAHIFRPFVGYKEVRLVSK-ESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPN  207 (214)
Q Consensus       149 L~~lF~~fG~i~~vrl~~~-k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~  207 (214)
                      ++.-+..||.|..|.++.. ...++ .--.|.-||+|.+.++++.|+++|+|.++.++-+
T Consensus       426 vr~ec~k~g~v~~v~ipr~~~~~~~-~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtV  484 (500)
T KOG0120|consen  426 VRTECAKFGAVRSVEIPRPYPDENP-VPGTGKVFVEFADTEDSQRAMEELTGRKFANRTV  484 (500)
T ss_pred             HHHHhcccCceeEEecCCCCCCCCc-CCCcccEEEEecChHHHHHHHHHccCceeCCcEE
Confidence            4455778999999999887 32221 1123578999999999999999999999987754

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

Probab=96.02  E-value=0.0048  Score=54.18  Aligned_cols=74  Identities=16%  Similarity=0.245  Sum_probs=59.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCC-C-----CCCCCCcc---cEEEEEecCHHHHHHHHHHhCCCee
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-S-----RHPGGDPL---ILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k-~-----~~~gG~~k---g~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      .-.||+.++|+...-.-|++||++||.|-.|.|.... .     ++.+|..+   -=+.|+|.+...|....+.|||..|
T Consensus        74 ~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~I  153 (278)
T KOG3152|consen   74 TGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPI  153 (278)
T ss_pred             ceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCcc
Confidence            4689999999999999999999999999999887654 2     11112211   2258999999999999999999988


Q ss_pred             ccc
Q 028098          203 VVA  205 (214)
Q Consensus       203 ~~~  205 (214)
                      .++
T Consensus       154 ggk  156 (278)
T KOG3152|consen  154 GGK  156 (278)
T ss_pred             CCC
Confidence            765

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=96.01  E-value=0.0064  Score=56.88  Aligned_cols=68  Identities=16%  Similarity=0.240  Sum_probs=51.0

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC-eeccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ-SKVVAPNQY  209 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~-~l~~~P~~~  209 (214)
                      ++||++||.+.++..+|..+|...---..-.++.+.     |    |+||++.+...|.+|++.|+|. ++.++++.+
T Consensus         2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k~-----g----yafvd~pdq~wa~kaie~~sgk~elqGkr~e~   70 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKS-----G----YAFVDCPDQQWANKAIETLSGKVELQGKRQEV   70 (584)
T ss_pred             CcccccccCCCCChHHHHHHhccccCCCCcceeeec-----c----eeeccCCchhhhhhhHHhhchhhhhcCceeec
Confidence            579999999999999999999865111111122221     3    9999999999999999999984 666766543

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

Probab=95.85  E-value=0.02  Score=52.29  Aligned_cols=70  Identities=14%  Similarity=0.217  Sum_probs=54.8

Q ss_pred             CCCEEEEcCCC----CcCC-------HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC
Q 028098          131 ASSTLFVEGLP----SDCS-------RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV  199 (214)
Q Consensus       131 ~s~tLfVgnLp----~~~t-------e~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG  199 (214)
                      ..+||.+.|+=    +..+       +++|.+-+++||.|..|.|...   |+.|    .+-|.|.+.++|..||+.|+|
T Consensus       264 ~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~---hPdG----vvtV~f~n~eeA~~ciq~m~G  336 (382)
T KOG1548|consen  264 ADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDR---HPDG----VVTVSFRNNEEADQCIQTMDG  336 (382)
T ss_pred             CCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEecc---CCCc----eeEEEeCChHHHHHHHHHhcC
Confidence            46899999982    2333       4566677999999999865433   3445    999999999999999999999


Q ss_pred             Ceeccccc
Q 028098          200 QSKVVAPN  207 (214)
Q Consensus       200 ~~l~~~P~  207 (214)
                      ..+.++-+
T Consensus       337 R~fdgRql  344 (382)
T KOG1548|consen  337 RWFDGRQL  344 (382)
T ss_pred             eeecceEE
Confidence            98887754

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

Probab=95.74  E-value=0.017  Score=53.50  Aligned_cols=65  Identities=17%  Similarity=0.292  Sum_probs=53.0

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeE---EEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYK---EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ  200 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~---~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~  200 (214)
                      ...|-+.+||+..+.|+|.++|..|..-+   -|.++.+..    |+|.|-|||+|.+.+.|.+|....+..
T Consensus       280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~q----GrPSGeAFIqm~nae~a~aaaqk~hk~  347 (508)
T KOG1365|consen  280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQ----GRPSGEAFIQMRNAERARAAAQKCHKK  347 (508)
T ss_pred             CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCC----CCcChhhhhhhhhhHHHHHHHHHHHHh
Confidence            67899999999999999999999986532   377777765    555569999999999999998765543

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

Probab=95.60  E-value=0.0028  Score=63.58  Aligned_cols=77  Identities=18%  Similarity=0.179  Sum_probs=64.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k-~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .+.|||++||+..+++.+|+..|..+|.|.+|.|-.-+ .+-.     -++||.|.+...+-.|+..+.+..|.-.+.++
T Consensus       371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~es-----a~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~  445 (975)
T KOG0112|consen  371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTES-----AYAFVSLLNTDMTPSAKFEESGPLIGNGTHRI  445 (975)
T ss_pred             hhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCccc-----chhhhhhhccccCcccchhhcCCccccCcccc
Confidence            57999999999999999999999999999999886664 2111     29999999999999999999988776666655


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      --|
T Consensus       446 glG  448 (975)
T KOG0112|consen  446 GLG  448 (975)
T ss_pred             ccc
Confidence            443

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

Probab=95.47  E-value=0.001  Score=66.19  Aligned_cols=65  Identities=22%  Similarity=0.319  Sum_probs=53.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV  199 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG  199 (214)
                      ..++||.||+..+.+++|...|.+++.+..+++..-+.+   ++.+|.|||+|..+++|.+|+.-..+
T Consensus       667 ~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~---~~~rG~~Y~~F~~~~~~~aaV~f~d~  731 (881)
T KOG0128|consen  667 LIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNE---KRFRGKAYVEFLKPEHAGAAVAFRDS  731 (881)
T ss_pred             HHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhc---cccccceeeEeecCCchhhhhhhhhh
Confidence            368999999999999999999999999988877633221   56667999999999999999965443

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

Probab=95.34  E-value=0.021  Score=57.59  Aligned_cols=67  Identities=15%  Similarity=0.206  Sum_probs=58.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      .++.+||++|...+....|...|..||.|..+.+-....         |++|.|++...|++|++.|-|..|.+-+
T Consensus       454 ~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq~---------yayi~yes~~~aq~a~~~~rgap~G~P~  520 (975)
T KOG0112|consen  454 PTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQP---------YAYIQYESPPAAQAATHDMRGAPLGGPP  520 (975)
T ss_pred             cceeeccCCCCCCChHHHHHHHhhccCcceeeecccCCc---------ceeeecccCccchhhHHHHhcCcCCCCC
Confidence            378999999999999999999999999998876654432         9999999999999999999999886543

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

Probab=95.32  E-value=0.019  Score=50.54  Aligned_cols=62  Identities=21%  Similarity=0.267  Sum_probs=52.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL  197 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L  197 (214)
                      ...|||.||+.-++.+.|..-|+.||.|....++.|..    |++.+=++|+|.....|.+|+..+
T Consensus        31 ~a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r----~k~t~eg~v~~~~k~~a~~a~rr~   92 (275)
T KOG0115|consen   31 HAELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDR----GKPTREGIVEFAKKPNARKAARRC   92 (275)
T ss_pred             cceEEEEecchhhhhHHHHHhhhhcCccchheeeeccc----ccccccchhhhhcchhHHHHHHHh
Confidence            36899999999999999999999999998766655553    334447899999999999999876

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

Probab=95.26  E-value=0.0068  Score=53.13  Aligned_cols=57  Identities=19%  Similarity=0.204  Sum_probs=44.8

Q ss_pred             HHHhhc-CCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          149 VAHIFR-PFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       149 L~~lF~-~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      |...|+ +||+|+++.+-.+..-|-.|    =++|.|...++|++|++.|||--+.++|+..
T Consensus        85 ~f~E~~~kygEiee~~Vc~Nl~~hl~G----NVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~a  142 (260)
T KOG2202|consen   85 VFTELEDKYGEIEELNVCDNLGDHLVG----NVYVKFRSEEDAEAALEDLNNRWYNGRPIHA  142 (260)
T ss_pred             HHHHHHHHhhhhhhhhhhcccchhhhh----hhhhhcccHHHHHHHHHHHcCccccCCccee
Confidence            333344 78999988665555444334    7999999999999999999999999999864

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=95.00  E-value=0.021  Score=55.38  Aligned_cols=64  Identities=17%  Similarity=0.227  Sum_probs=51.8

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCC-CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~f-G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      ..++.|+|.||-.-.|.-+|+.|+..- |.|.+.  ..|+-       |.-|||.|.+.++|.+-+.+|||..-
T Consensus       442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmDkI-------KShCyV~yss~eEA~atr~AlhnV~W  506 (718)
T KOG2416|consen  442 EPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMDKI-------KSHCYVSYSSVEEAAATREALHNVQW  506 (718)
T ss_pred             CccceEeeecccccchHHHHHHHHhhccCchHHH--HHHHh-------hcceeEecccHHHHHHHHHHHhcccc
Confidence            468999999999999999999999954 445444  44441       11699999999999999999999753

>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]

Probab=94.44  E-value=0.076  Score=51.29  Aligned_cols=65  Identities=12%  Similarity=0.220  Sum_probs=53.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcC--CCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHH-------hCCCe
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRP--FVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA-------LQVQS  201 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~--fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~-------LnG~~  201 (214)
                      ..+.|.+.-+|.++-+|+++.||+.  +-.+.+|.+-.+..          =||.|++..+|+.|...       ++|..
T Consensus       174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~n----------WyITfesd~DAQqAykylreevk~fqgKp  243 (684)
T KOG2591|consen  174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDN----------WYITFESDTDAQQAYKYLREEVKTFQGKP  243 (684)
T ss_pred             ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCc----------eEEEeecchhHHHHHHHHHHHHHhhcCcc
Confidence            4688999999999999999999985  78888998877763          49999999999999865       55655


Q ss_pred             eccc
Q 028098          202 KVVA  205 (214)
Q Consensus       202 l~~~  205 (214)
                      |+-+
T Consensus       244 ImAR  247 (684)
T KOG2591|consen  244 IMAR  247 (684)
T ss_pred             hhhh
Confidence            5543

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

Probab=94.32  E-value=0.063  Score=44.63  Aligned_cols=72  Identities=13%  Similarity=0.154  Sum_probs=47.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcC-CCCe---EEEEEeeCCCCCCCCCc-ccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRP-FVGY---KEVRLVSKESRHPGGDP-LILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~-fG~i---~~vrl~~~k~~~~gG~~-kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      ..+|.|++||++.||+++.+.+++ ++.-   ..+.-.....  +-..+ -.-|||.|.+.+++..-++.++|+.+.+.
T Consensus         7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~--~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~   83 (176)
T PF03467_consen    7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKK--SFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDS   83 (176)
T ss_dssp             --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-S--SSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-T
T ss_pred             CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCc--cCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECC
Confidence            569999999999999999998887 6655   3443112210  00111 14699999999999999999999877543

Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=93.95  E-value=0.046  Score=49.61  Aligned_cols=81  Identities=17%  Similarity=0.261  Sum_probs=61.6

Q ss_pred             CCEEEEcCCCCcCCHHHHH---HhhcCCCCeEEEEEeeCCC--CCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          132 SSTLFVEGLPSDCSRREVA---HIFRPFVGYKEVRLVSKES--RHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~---~lF~~fG~i~~vrl~~~k~--~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      .+-+||-+|+.....+++.   +.|.+||.|..|.+-.+.+  ...++ .. -++|.|...++|..||...+|+.+.++.
T Consensus        77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~-~~-s~yITy~~~eda~rci~~v~g~~~dg~~  154 (327)
T KOG2068|consen   77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGG-TC-SVYITYEEEEDADRCIDDVDGFVDDGRA  154 (327)
T ss_pred             hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCC-CC-cccccccchHhhhhHHHHhhhHHhhhhh
Confidence            4678899999887666654   6899999999998777652  22222 11 2699999999999999999999999988


Q ss_pred             cccccCCC
Q 028098          207 NQYQSGST  214 (214)
Q Consensus       207 ~~~~~~~~  214 (214)
                      ++...|.|
T Consensus       155 lka~~gtt  162 (327)
T KOG2068|consen  155 LKASLGTT  162 (327)
T ss_pred             hHHhhCCC
Confidence            76665543

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

Probab=93.90  E-value=0.054  Score=53.56  Aligned_cols=67  Identities=22%  Similarity=0.285  Sum_probs=52.4

Q ss_pred             CCCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEE-EEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHH
Q 028098          126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (214)
Q Consensus       126 ~~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~-vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~  196 (214)
                      +.|......|||..||..+++.++.++|...-.|++ +.|.....    ++..+-|||+|..++++.+|+..
T Consensus       428 p~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~----~~~~~~afv~F~~~~a~~~a~~~  495 (944)
T KOG4307|consen  428 PFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPT----DLLRPAAFVAFIHPTAPLTASSV  495 (944)
T ss_pred             CCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCc----ccccchhhheeccccccchhhhc
Confidence            455567899999999999999999999998877776 55544443    23334899999998888888754

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=93.83  E-value=0.67  Score=35.81  Aligned_cols=67  Identities=10%  Similarity=0.145  Sum_probs=49.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG-~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                      +..+.+...|.-++.++|..+.+++- .|..+||+++....+     =.+.+.|.+.+.|.+-.+.+||..+.
T Consensus        13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnr-----ymVLikF~~~~~Ad~Fy~~fNGk~Fn   80 (110)
T PF07576_consen   13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNR-----YMVLIKFRDQESADEFYEEFNGKPFN   80 (110)
T ss_pred             ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCce-----EEEEEEECCHHHHHHHHHHhCCCccC
Confidence            34555555666667777877777764 456789999863322     27788999999999999999998764

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

>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]

Probab=93.42  E-value=0.035  Score=55.80  Aligned_cols=72  Identities=19%  Similarity=0.201  Sum_probs=60.0

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee--ccccccccc
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK--VVAPNQYQS  211 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l--~~~P~~~~~  211 (214)
                      +.++.|.+-+.+...|..||+.||.|.+.+.+++-.         .|.|+|.+.+.|..|+++|+|..+  .+.|.++..
T Consensus       300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~N---------~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~  370 (1007)
T KOG4574|consen  300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDLN---------MALVSFSSVESAILALDALQGKEVSVTGAPSRVSF  370 (1007)
T ss_pred             hhhhhcccccchHHHHHHHHHhhcchhhheeccccc---------chhhhhHHHHHHHHhhhhhcCCcccccCCceeEEe
Confidence            445556677788999999999999999999988864         899999999999999999999765  567777766


Q ss_pred             CCC
Q 028098          212 GST  214 (214)
Q Consensus       212 ~~~  214 (214)
                      .+|
T Consensus       371 ak~  373 (1007)
T KOG4574|consen  371 AKT  373 (1007)
T ss_pred             ccc
Confidence            553

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

Probab=92.14  E-value=0.3  Score=48.04  Aligned_cols=59  Identities=15%  Similarity=0.075  Sum_probs=49.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      .-++||+|+...|..+-++.+...+|-|..+..  .+          |+|++|....-+..|+..|+-..+
T Consensus        40 ~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr--~~----------fgf~~f~~~~~~~ra~r~~t~~~~   98 (668)
T KOG2253|consen   40 RDTVFVGNISYLVSQEFWKSILAKSGFVPSWKR--DK----------FGFCEFLKHIGDLRASRLLTELNI   98 (668)
T ss_pred             CceeEecchhhhhhHHHHHHHHhhCCcchhhhh--hh----------hcccchhhHHHHHHHHHHhcccCC
Confidence            679999999999999999999999998766532  21          899999999999999987664444

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

Probab=90.84  E-value=0.59  Score=42.22  Aligned_cols=61  Identities=18%  Similarity=0.108  Sum_probs=46.2

Q ss_pred             HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          146 RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       146 e~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ++++++-+.+||.|..|.|....+- + -+-..--||+|+..++|.+|+--|||..+.++-..
T Consensus       300 ede~keEceKyg~V~~viifeip~~-p-~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~  360 (378)
T KOG1996|consen  300 EDETKEECEKYGKVGNVIIFEIPSQ-P-EDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVS  360 (378)
T ss_pred             HHHHHHHHHhhcceeeEEEEecCCC-c-cchhheeeeeeccHHHHHHHHHhcCCceecceeee
Confidence            4567788999999998877665411 0 01123579999999999999999999999887543

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

Probab=90.21  E-value=0.48  Score=39.80  Aligned_cols=59  Identities=19%  Similarity=0.066  Sum_probs=44.8

Q ss_pred             CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC--CCeecccccccccC
Q 028098          145 SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ--VQSKVVAPNQYQSG  212 (214)
Q Consensus       145 te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln--G~~l~~~P~~~~~~  212 (214)
                      ..+.|+++|..++.+.....+..-.         =..|.|.+.+.|+.|...|+  ++.+.+..+++-+|
T Consensus         8 ~~~~l~~l~~~~~~~~~~~~L~sFr---------Ri~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~   68 (184)
T PF04847_consen    8 NLAELEELFSTYDPPVQFSPLKSFR---------RIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFG   68 (184)
T ss_dssp             -HHHHHHHHHTT-SS-EEEEETTTT---------EEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE--
T ss_pred             hHHHHHHHHHhcCCceEEEEcCCCC---------EEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEc
Confidence            4578999999999998887766642         58999999999999999999  99998888777665

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

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=89.78  E-value=0.34  Score=43.33  Aligned_cols=73  Identities=18%  Similarity=0.022  Sum_probs=58.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      ..+++|++++.+++.+.++..+|...|....+++......   ...|+++.|.|...+.+..|+.....+.+....
T Consensus        87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~---~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~  159 (285)
T KOG4210|consen   87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDS---LSSKGGLSVHFAGKSQFFAALEESGSKVLDGNK  159 (285)
T ss_pred             ccccccccccccchhhccccccchhhcCcccchhhhhccc---cccccceeeccccHHHHHHHHHhhhcccccccc
Confidence            4689999999999999999999999998888877765421   455669999999999999999765554544443

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=89.47  E-value=1  Score=36.75  Aligned_cols=58  Identities=24%  Similarity=0.271  Sum_probs=44.2

Q ss_pred             CCEEEEcCCCCcC-CHHH---HHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC
Q 028098          132 SSTLFVEGLPSDC-SRRE---VAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV  199 (214)
Q Consensus       132 s~tLfVgnLp~~~-te~e---L~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG  199 (214)
                      -.||.|.=|..++ ..+|   +..-.+.||.|.+|.+.-..          -|.|.|.+..+|=.|+.+++-
T Consensus        86 MsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGrq----------savVvF~d~~SAC~Av~Af~s  147 (166)
T PF15023_consen   86 MSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGRQ----------SAVVVFKDITSACKAVSAFQS  147 (166)
T ss_pred             ceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCCc----------eEEEEehhhHHHHHHHHhhcC
Confidence            5688898766654 2334   44556789999999764443          699999999999999999875

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

Probab=88.35  E-value=1.4  Score=41.82  Aligned_cols=67  Identities=15%  Similarity=0.253  Sum_probs=57.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCC-CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~f-G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                      ++.|+|=-+|..++-.||..+...| -.|.++++++|....+=     ...+.|.+.++|..-.+.+||..+.
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnry-----mvLIkFr~q~da~~Fy~efNGk~Fn  141 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRY-----MVLIKFRDQADADTFYEEFNGKQFN  141 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceE-----EEEEEeccchhHHHHHHHcCCCcCC
Confidence            7899999999999999999998876 55778999998633222     6799999999999999999998765

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

Probab=87.65  E-value=2.4  Score=29.83  Aligned_cols=54  Identities=13%  Similarity=0.134  Sum_probs=43.0

Q ss_pred             cCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          143 DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       143 ~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      .++-++++..+..|.-   .+|..+++    |     =||.|.+..+|++|....+|..+...-|+
T Consensus        11 ~~~v~d~K~~Lr~y~~---~~I~~d~t----G-----fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~   64 (66)
T PF11767_consen   11 GVTVEDFKKRLRKYRW---DRIRDDRT----G-----FYIVFNDSKEAERCFRAEDGTLFFTYRMQ   64 (66)
T ss_pred             CccHHHHHHHHhcCCc---ceEEecCC----E-----EEEEECChHHHHHHHHhcCCCEEEEEEEE
Confidence            4677899999999864   35556653    3     59999999999999999999988766544

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

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

Probab=86.59  E-value=2.4  Score=29.89  Aligned_cols=57  Identities=12%  Similarity=0.188  Sum_probs=35.2

Q ss_pred             CcCCHHHHHHhhcCCCCeE-----EEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          142 SDCSRREVAHIFRPFVGYK-----EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       142 ~~~te~eL~~lF~~fG~i~-----~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++..+|..++..-+.|.     .+++..+           |+||+-.. +.|+.++++|++..+.++++.+.
T Consensus        11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~-----------~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve   72 (74)
T PF03880_consen   11 DGLTPRDIVGAICNEAGIPGRDIGRIDIFDN-----------FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVE   72 (74)
T ss_dssp             GT--HHHHHHHHHTCTTB-GGGEEEEEE-SS------------EEEEE-T-T-HHHHHHHHTT--SSS----EE
T ss_pred             cCCCHHHHHHHHHhccCCCHHhEEEEEEeee-----------EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEE
Confidence            4578888998888876654     5666555           89999875 58899999999999999988764

; PDB: 2G0C_A 3MOJ_B.

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

Probab=84.58  E-value=0.12  Score=45.57  Aligned_cols=69  Identities=14%  Similarity=0.204  Sum_probs=54.0

Q ss_pred             CCCCCC---CCCcccccccccccccccCCCCCCCccccchhhhhhccCC--CCCCCCC-CCCCCCCCCCCCCCCCCCCc
Q 028098           27 RTDYDV---PSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQ--ISSYSGG-QSARHMSGGMPSRPVDDPRI   99 (214)
Q Consensus        27 ~~~~~~---~~~~~~~~y~~~~~~r~~~~~~~~~~~~~~~~dr~~~~~~--~~~~~~~-~~~r~~~gg~~G~~~~~~~~   99 (214)
                      ..||-|   ++++||+|-++--.|+ .|+++-.+|||.++=+  ..+++  |+||.+- +..|+|. +|+|.++.++.+
T Consensus       188 ~~DfRIfcgdlgNevnd~vl~raf~-Kfpsf~~akviRdkRT--gKSkgygfVSf~~pad~~rAmr-em~gkyVgsrpi  262 (290)
T KOG0226|consen  188 EDDFRIFCGDLGNEVNDDVLARAFK-KFPSFQKAKVIRDKRT--GKSKGYGFVSFRDPADYVRAMR-EMNGKYVGSRPI  262 (290)
T ss_pred             cccceeecccccccccHHHHHHHHH-hccchhhccccccccc--cccccceeeeecCHHHHHHHHH-hhcccccccchh
Confidence            347767   7899999998877665 4899999999986655  57776  5688875 6668998 999988877653

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

Probab=82.75  E-value=0.69  Score=44.05  Aligned_cols=71  Identities=17%  Similarity=0.061  Sum_probs=54.3

Q ss_pred             CCEEEEcCCCCcC-CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPSDC-SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~~-te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+.|-+.-.|+.. +.++|..-|.+||.|..|.+-....         -|.|+|.+..+|-.|. +.++..|+.+++++-
T Consensus       372 hs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~~---------~a~vTF~t~aeag~a~-~s~~avlnnr~iKl~  441 (526)
T KOG2135|consen  372 HSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSSL---------HAVVTFKTRAEAGEAY-ASHGAVLNNRFIKLF  441 (526)
T ss_pred             cchhhhhccCCCCchHhhhhhhhhhcCccccccccCchh---------hheeeeeccccccchh-ccccceecCceeEEE
Confidence            4555565556553 6788999999999999886644411         5899999999996664 688889999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      |-
T Consensus       442 wh  443 (526)
T KOG2135|consen  442 WH  443 (526)
T ss_pred             Ee
Confidence            64

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

Probab=81.20  E-value=2.3  Score=38.55  Aligned_cols=60  Identities=18%  Similarity=0.164  Sum_probs=43.2

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                      ..|=|-++|+... .-|..+|++||.|++.....+      |.   |-.|.|.++-+|.+||.. ||..|.
T Consensus       198 ~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~~n------gN---wMhirYssr~~A~KALsk-ng~ii~  257 (350)
T KOG4285|consen  198 TWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTPSN------GN---WMHIRYSSRTHAQKALSK-NGTIID  257 (350)
T ss_pred             ceEEEeccCccch-hHHHHHHHhhCeeeeeecCCC------Cc---eEEEEecchhHHHHhhhh-cCeeec
Confidence            4555667777644 456689999999987765522      32   999999999999999953 444443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	214
2do4_A	100	Solution Structure Of The Rna Binding Domain Of Squ		2e-04
3pgw_A	282	Crystal Structure Of Human U1 Snrnp Length = 282		2e-04
2b0g_A	83	Solution Structure Of Drosophila Melanogaster Snf R		3e-04
2u1a_A	88	Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20		4e-04

>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous Cell Carcinoma Antigen Recognized By T Cells 3 Length = 100

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 7/81 (8%)
Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA- 193
           LF+ GLP  C++ E+  I +     K++RLV+  +  P G    L +V++ + + A+ A 
Sbjct: 20  LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKG----LAYVEYENESQASQAV 75
Query: 194 --MDALQVQSKVVAPNQYQSG 212
             MD + ++  ++      SG
Sbjct: 76  MKMDGMTIKENIIKVAISNSG 96

>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp Length = 282

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 26/71 (36%), Positives = 37/71 (52%), Gaps = 10/71 (14%)
Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           PP+    LF+  LP + +   ++ +F  F G+KEVRLV    RH       + FV+F + 
Sbjct: 205 PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLVP--GRHD------IAFVEFDNE 254
Query: 188 AHAATAMDALQ 198
             A  A DALQ
Sbjct: 255 VQAGAARDALQ 265

>pdb|2B0G|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2 Length = 83

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 10/71 (14%)
Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           PP+    LF+  LP + +   ++ +F  F G+KEVRLV   +RH       + FV+F + 
Sbjct: 6   PPN--QILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVP--NRHD------IAFVEFTTE 55
Query: 188 AHAATAMDALQ 198
             +  A +ALQ
Sbjct: 56  LQSNAAKEALQ 66

>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20 Structures Length = 88

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 26/71 (36%), Positives = 37/71 (52%), Gaps = 10/71 (14%)
Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           PP+    LF+  LP + +   ++ +F  F G+KEVRLV    RH       + FV+F + 
Sbjct: 11  PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLVP--GRHD------IAFVEFDNE 60
Query: 188 AHAATAMDALQ 198
             A  A DALQ
Sbjct: 61  VQAGAARDALQ 71

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	214
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	1e-08
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	1e-08
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	2e-08
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	3e-08
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	7e-08
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	2e-07
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	3e-07
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	4e-07
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	5e-07
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	5e-07
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	5e-07
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	5e-07
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	6e-07
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	6e-07
2dis_A	109	Unnamed protein product; structural genomics, RRM	8e-07
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-06
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	3e-06
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	3e-06
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	3e-06
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	4e-06
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	6e-06
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	7e-06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	8e-06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-04
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	9e-06
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	5e-04
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	1e-05
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	1e-05
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	1e-05
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	2e-05
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	2e-05
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	2e-05
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	3e-05
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	4e-05
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	4e-05
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	4e-05
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	8e-05
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	9e-05
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	9e-05
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	1e-04
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	1e-04
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	1e-04
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	2e-04
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	2e-04
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	2e-04
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	2e-04
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	2e-04
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	2e-04
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	2e-04
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	2e-04
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	2e-04
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	2e-04
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	2e-04
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	2e-04
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	2e-04
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	3e-04
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	3e-04
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	3e-04
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	4e-04
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	4e-04
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	5e-04
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	5e-04
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	6e-04
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	7e-04
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	7e-04
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	7e-04
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	8e-04
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	8e-04
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	8e-04
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	9e-04

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

 Score = 50.4 bits (121), Expect = 1e-08
 Identities = 16/72 (22%), Positives = 30/72 (41%), Gaps = 6/72 (8%)

Query: 127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVS 186
           LPP+ +  L++  LP   +  E+  IF  +   +++R+        G       +V +  
Sbjct: 3   LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG-NTPETRG-----TAYVVYED 56

Query: 187 PAHAATAMDALQ 198
              A  A+D L 
Sbjct: 57  IFDAKNAVDHLS 68

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 50.1 bits (120), Expect = 1e-08
 Identities = 14/76 (18%), Positives = 24/76 (31%), Gaps = 5/76 (6%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLI 178
             G S           + + GLP   +  ++ + F P      V +         G+   
Sbjct: 2   SSGSSGSSFQSTTGHCVHMRGLPYRATENDIYNFFSPL-NPMRVHIEIGPDGRVTGE--- 57

Query: 179 LCFVDFVSPAHAATAM 194
              V+F +   A  AM
Sbjct: 58  -ADVEFATHEDAVAAM 72

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 50.6 bits (121), Expect = 2e-08
 Identities = 22/113 (19%), Positives = 36/113 (31%), Gaps = 16/113 (14%)

Query: 83  RHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPS 142
            H S G+  R           G         + +G G G SE  +       + + GLP 
Sbjct: 8   HHHSSGLVPR-----------GSHMASMTGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPY 56

Query: 143 DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMD 195
             +  ++ + F P      V +         G+      V+F +   A  AM 
Sbjct: 57  KATENDIYNFFSPL-NPVRVHIEIGPDGRVTGE----ADVEFATHEEAVAAMS 104

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 50.7 bits (121), Expect = 3e-08
 Identities = 22/117 (18%), Positives = 41/117 (35%), Gaps = 13/117 (11%)

Query: 82  ARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLP 141
           ++H +  +P    +D  +      D G S   R    G    +   PP  S+TL +  +P
Sbjct: 76  SKHQNVQLPREGQEDQGL----TKDYGNSPLHRFKKPGSKNFQNIFPP--SATLHLSNIP 129

Query: 142 SDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ 198
              S  ++  +F    G  +     ++ R        +  +   S   A  A+  L 
Sbjct: 130 PSVSEEDLKVLFSSNGGVVKGFKFFQKDRK-------MALIQMGSVEEAVQALIDLH 179

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

 Score = 48.1 bits (115), Expect = 7e-08
 Identities = 23/78 (29%), Positives = 33/78 (42%), Gaps = 2/78 (2%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           G S        +S + V  +P   ++RE+  +F  F   K VRL  K      G      
Sbjct: 4   GSSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKK--MTGTGAHRGFG 61

Query: 181 FVDFVSPAHAATAMDALQ 198
           FVDF++   A  A +AL 
Sbjct: 62  FVDFITKQDAKKAFNALC 79

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 46.1 bits (110), Expect = 2e-07
 Identities = 13/67 (19%), Positives = 23/67 (34%), Gaps = 5/67 (7%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
                 T+ + G P + + + V     P      +R+V     +  G      FVDF + 
Sbjct: 6   SGTTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGY----IFVDFSNE 60

Query: 188 AHAATAM 194
                A+
Sbjct: 61  EEVKQAL 67

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score = 46.8 bits (111), Expect = 3e-07
 Identities = 22/116 (18%), Positives = 32/116 (27%), Gaps = 20/116 (17%)

Query: 80  QSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEG 139
               H S G+  R      + G               G   GR            + + G
Sbjct: 5   HHHHHHSSGLVPRGSHMASMTG---------------GQQMGRGSNSADSANDGFVRLRG 49

Query: 140 LPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           LP  C++ E+   F         + L         G+     FV F S   A  A+
Sbjct: 50  LPFGCTKEEIVQFFSGLEIVPNGITLPVDPEGKITGE----AFVQFASQELAEKAL 101

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 46.3 bits (110), Expect = 4e-07
 Identities = 18/78 (23%), Positives = 26/78 (33%), Gaps = 6/78 (7%)

Query: 119 GGGRSEVPLPPDASS-TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPL 177
             G S  PLP +     + V G+P      +V   F        V L+        G+  
Sbjct: 2   SSGSSGKPLPINPDDLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGN-- 58

Query: 178 ILCFVDFVSPAHAATAMD 195
               V F+SP     A+ 
Sbjct: 59  --GLVKFLSPQDTFEALK 74

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

 Score = 45.4 bits (108), Expect = 5e-07
 Identities = 12/74 (16%), Positives = 25/74 (33%), Gaps = 7/74 (9%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPF--VGYKEVRLVS-KESRHPGGDPLILCFVDF 184
                 T+ +  +        +     P+  +    +RL+  K+++   G      FV  
Sbjct: 5   HHHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRG----FAFVQL 60

Query: 185 VSPAHAATAMDALQ 198
            S   A+  +  LQ
Sbjct: 61  SSAMDASQLLQILQ 74

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 45.9 bits (109), Expect = 5e-07
 Identities = 10/76 (13%), Positives = 21/76 (27%), Gaps = 5/76 (6%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLI 178
            G S       A     +  +P   ++ +V          +  V ++   +    G    
Sbjct: 3   SGSSGEGDVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQ--- 59

Query: 179 LCFVDFVSPAHAATAM 194
              V F +   A  + 
Sbjct: 60  -ALVQFKNEDDARKSE 74

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 45.5 bits (108), Expect = 5e-07
 Identities = 17/75 (22%), Positives = 25/75 (33%), Gaps = 5/75 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHPGGDPLIL 179
           G S           + + GLP  CS+ E+   F    +    + L         G+    
Sbjct: 4   GSSGNSPDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGE---- 59

Query: 180 CFVDFVSPAHAATAM 194
            FV F S   A  A+
Sbjct: 60  AFVQFASQEIAEKAL 74

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 46.0 bits (109), Expect = 5e-07
 Identities = 16/77 (20%), Positives = 32/77 (41%), Gaps = 5/77 (6%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHPGGDPL 177
           G  RS    P +A   ++++GLP +   + V   F+   +    + +    +    G+  
Sbjct: 12  GQKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGE-- 69

Query: 178 ILCFVDFVSPAHAATAM 194
              FV+F + A    A+
Sbjct: 70  --GFVEFRNEADYKAAL 84

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A Length = 95

 Score = 45.4 bits (108), Expect = 6e-07
 Identities = 19/81 (23%), Positives = 27/81 (33%), Gaps = 5/81 (6%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHPGGDPL 177
             G S         + + V+ +P   S  E+   F  + V    V L   E   P G+  
Sbjct: 2   SSGSSGSSSGKPGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGE-- 59

Query: 178 ILCFVDFVSPAHAATAMDALQ 198
               V F S   A  A+  L 
Sbjct: 60  --AMVAFESRDEATAAVIDLN 78

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 45.4 bits (108), Expect = 6e-07
 Identities = 19/81 (23%), Positives = 27/81 (33%), Gaps = 5/81 (6%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHPGGDPL 177
             G S         + + V+ +P   S  E+   F  + V    V L   E   P G+  
Sbjct: 2   SSGSSGASSGKPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGE-- 59

Query: 178 ILCFVDFVSPAHAATAMDALQ 198
               V F S   A  A+  L 
Sbjct: 60  --AMVAFESRDEATAAVIDLN 78

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 45.2 bits (107), Expect = 8e-07
 Identities = 14/68 (20%), Positives = 23/68 (33%), Gaps = 1/68 (1%)

Query: 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHA 190
            +  LF+ G+P    R E+              +V   +     +     FV++ S   A
Sbjct: 7   GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGF-AFVEYESHRAA 65

Query: 191 ATAMDALQ 198
           A A   L 
Sbjct: 66  AMARRKLM 73

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Length = 229

 Score = 46.1 bits (109), Expect = 2e-06
 Identities = 19/94 (20%), Positives = 32/94 (34%), Gaps = 9/94 (9%)

Query: 105 MDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRL 164
            D G S   R    G    +   PP  S+TL +  +P   S  ++  +F    G  +   
Sbjct: 126 KDYGNSPLHRFKKPGSKNFQNIFPP--SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFK 183

Query: 165 VSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ 198
             ++ R        +  +   S   A  A+  L 
Sbjct: 184 FFQKDRK-------MALIQMGSVEEAVQALIDLH 210

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score = 43.7 bits (103), Expect = 3e-06
 Identities = 13/75 (17%), Positives = 25/75 (33%), Gaps = 7/75 (9%)

Query: 123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPF---VGYKEVRLVSKESRHPGGDPLIL 179
           S++    D    +  +GLP  C+  +V + F       G   +  +        GD    
Sbjct: 2   SKLEEEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGD---- 57

Query: 180 CFVDFVSPAHAATAM 194
             ++  S      A+
Sbjct: 58  ALIEMESEQDVQKAL 72

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

 Score = 43.5 bits (103), Expect = 3e-06
 Identities = 18/83 (21%), Positives = 34/83 (40%), Gaps = 5/83 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLIL 179
           G S +P       T+F+  L  D     +  + + F   K VR+V   ++ H  G     
Sbjct: 4   GSSGLPSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKG----C 59

Query: 180 CFVDFVSPAHAATAMDALQVQSK 202
            F  F++   A   + A  ++++
Sbjct: 60  AFAQFMTQEAAQKCLAAASLEAE 82

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 44.9 bits (107), Expect = 3e-06
 Identities = 18/86 (20%), Positives = 37/86 (43%), Gaps = 8/86 (9%)

Query: 113 DRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHP 172
              + L   +        A+ TL  + L  + +  E+  +F   +   E+RLVS++ +  
Sbjct: 80  GNEIKLEKPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDAL---EIRLVSQDGKSK 136

Query: 173 GGDPLILCFVDFVSPAHAATAMDALQ 198
           G     + +++F S A A   ++  Q
Sbjct: 137 G-----IAYIEFKSEADAEKNLEEKQ 157

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

 Score = 43.2 bits (102), Expect = 4e-06
 Identities = 14/81 (17%), Positives = 25/81 (30%), Gaps = 7/81 (8%)

Query: 117 GLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDP 176
           G  G    VP        L +  +P       +  +   +   +    V+ +S       
Sbjct: 1   GSSGSSGSVP-KRQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDS--ETA-- 55

Query: 177 LILCFVDFVSPAHAATAMDAL 197
             +  V + S   A  A+D L
Sbjct: 56  --VVNVTYSSKDQARQALDKL 74

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 43.0 bits (101), Expect = 6e-06
 Identities = 21/82 (25%), Positives = 31/82 (37%), Gaps = 10/82 (12%)

Query: 119 GGGRSEV--PLPPDASSTLFVEGLPSDCSRREVAHIFRPF----VGYKEVRLVSKESRHP 172
           GG  +EV   L  +    + + GLP   +  EV   F        G + +  V+     P
Sbjct: 8   GGTSNEVAQFLSKENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRP 67

Query: 173 GGDPLILCFVDFVSPAHAATAM 194
            GD     FV F    +A  A+
Sbjct: 68  TGD----AFVLFACEEYAQNAL 85

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 43.0 bits (101), Expect = 7e-06
 Identities = 16/82 (19%), Positives = 25/82 (30%), Gaps = 8/82 (9%)

Query: 117 GLGGGRSEVPLPPDASS-TLFVEGLPSDCSRREVAHIFRPF---VGYKEVRLVSKESRHP 172
           G  G    +  P       + + GLP  CS  +V +         G   V  +       
Sbjct: 1   GSSGSSGMMLGPEGGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQ 60

Query: 173 GGDPLILCFVDFVSPAHAATAM 194
            G+     FV+  S      A+
Sbjct: 61  SGE----AFVELESEDDVKLAL 78

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

 Score = 44.6 bits (106), Expect = 8e-06
 Identities = 14/79 (17%), Positives = 30/79 (37%), Gaps = 5/79 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHPGGDPLIL 179
           G++E+ +      TL++   P   ++R +  + +   V    +RL S             
Sbjct: 106 GQNEIIVSHLTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRR----F 161

Query: 180 CFVDFVSPAHAATAMDALQ 198
            ++D  S   A   ++ L 
Sbjct: 162 AYIDVTSKEDARYCVEKLN 180

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

 Score = 40.0 bits (94), Expect = 3e-04
 Identities = 11/76 (14%), Positives = 25/76 (32%), Gaps = 5/76 (6%)

Query: 123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV 182
           +E        +T+ V+ LP   ++ +V   F+       V +     ++          +
Sbjct: 32  NEALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFR-----FARI 86

Query: 183 DFVSPAHAATAMDALQ 198
           +F     A  A+    
Sbjct: 87  EFARYDGALAAITKTH 102

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 44.5 bits (104), Expect = 9e-06
 Identities = 28/121 (23%), Positives = 46/121 (38%), Gaps = 8/121 (6%)

Query: 78  GGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFV 137
                      MP   +  P  +  G + PG     + +      ++       +  LF+
Sbjct: 153 IMHHMPGQPPYMPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFL 212

Query: 138 EGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL 197
             LP + +   ++ +F  F G+KEVRLV             + FV+F +   A  A DAL
Sbjct: 213 TNLPEETNELMLSMLFNQFPGFKEVRLVPGRHD--------IAFVEFDNEVQAGAARDAL 264

Query: 198 Q 198
           Q
Sbjct: 265 Q 265

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 39.1 bits (90), Expect = 5e-04
 Identities = 14/70 (20%), Positives = 29/70 (41%), Gaps = 8/70 (11%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRP-FVGYKEVR--LVSKESRHPGGDPLILCFVDFVSPA 188
           + T+++  L     + E+       F  + ++   LVS+  +  G       FV F   +
Sbjct: 9   NHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRG-----QAFVIFKEVS 63

Query: 189 HAATAMDALQ 198
            A  A+ ++Q
Sbjct: 64  SATNALRSMQ 73

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

 Score = 41.9 bits (99), Expect = 1e-05
 Identities = 18/70 (25%), Positives = 35/70 (50%), Gaps = 4/70 (5%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
                  LF+ GLP  C++ E+  I +     K++RLV+  +  P G    L +V++ + 
Sbjct: 13  TSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKG----LAYVEYENE 68

Query: 188 AHAATAMDAL 197
           + A+ A+  +
Sbjct: 69  SQASQAVMKM 78

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 41.7 bits (98), Expect = 1e-05
 Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 8/71 (11%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
               ++ ++V  LP D    ++    R   G   +RL  +  R          F+ +   
Sbjct: 15  GAPLAADVYVGNLPRDARVSDLKRALREL-GSVPLRLTWQGPRRR-------AFLHYPDS 66

Query: 188 AHAATAMDALQ 198
           A A  A+  LQ
Sbjct: 67  AAAQQAVSCLQ 77

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

 Score = 41.6 bits (98), Expect = 1e-05
 Identities = 9/63 (14%), Positives = 24/63 (38%), Gaps = 4/63 (6%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           +++++G P+D +  ++            +++     +   G      FV F S   A   
Sbjct: 13  SVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKG----SIFVVFDSIESAKKF 68

Query: 194 MDA 196
           ++ 
Sbjct: 69  VET 71

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 41.1 bits (97), Expect = 2e-05
 Identities = 18/77 (23%), Positives = 27/77 (35%), Gaps = 3/77 (3%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLI 178
             G S   LP     T F+  LP D +   +   FR       VRL  +E  +P      
Sbjct: 2   SSGSSGSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGL-NISAVRLP-REPSNPER-LKG 58

Query: 179 LCFVDFVSPAHAATAMD 195
             + +F       +A+ 
Sbjct: 59  FGYAEFEDLDSLLSALS 75

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 41.1 bits (97), Expect = 2e-05
 Identities = 15/79 (18%), Positives = 22/79 (27%), Gaps = 7/79 (8%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV--SKESRHPGGDP 176
                   LP     T F+  LP D +   +   FR       VRL           G  
Sbjct: 6   HHHHHRSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGL-NISAVRLPREPSNPERLKG-- 62

Query: 177 LILCFVDFVSPAHAATAMD 195
               + +F       +A+ 
Sbjct: 63  --FGYAEFEDLDSLLSALS 79

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Length = 129

 Score = 41.6 bits (98), Expect = 2e-05
 Identities = 22/114 (19%), Positives = 37/114 (32%), Gaps = 7/114 (6%)

Query: 85  MSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDC 144
           M             +    G         + +G G         PD +  L V GL    
Sbjct: 1   MGSSHHHHHHSSGLV--PRGSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYT 58

Query: 145 SRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHAATAMDAL 197
           + R++  +F  +    +V +V  ++SR   G      FV F +   A  A +  
Sbjct: 59  TERDLREVFSKYGPIADVSIVYDQQSRRSRG----FAFVYFENVDDAKEAKERA 108

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

 Score = 40.7 bits (96), Expect = 3e-05
 Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 5/67 (7%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHA 190
           S  LFV  L    S  ++  +F  +    E+       ++ P G      FV F+ P HA
Sbjct: 8   SGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKG----FAFVTFMFPEHA 63

Query: 191 ATAMDAL 197
             A   +
Sbjct: 64  VKAYAEV 70

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 40.3 bits (95), Expect = 4e-05
 Identities = 13/78 (16%), Positives = 27/78 (34%), Gaps = 7/78 (8%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           G S        S TL +  L    +   +  +F        +++   ++    G      
Sbjct: 4   GSSGNSTWSGESKTLVLSNLSYSATEETLQEVFEK---ATFIKVPQNQNGKSKG----YA 56

Query: 181 FVDFVSPAHAATAMDALQ 198
           F++F S   A  A+++  
Sbjct: 57  FIEFASFEDAKEALNSCN 74

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 41.4 bits (98), Expect = 4e-05
 Identities = 18/84 (21%), Positives = 34/84 (40%), Gaps = 12/84 (14%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV----SKESRHPGGDPLILCFVDFVSPAH 189
            +FV  +P   S +++  +F  +    E+ ++        +  G      CFV F +   
Sbjct: 5   KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKG-----CCFVTFYTRKA 59

Query: 190 AATAMDAL---QVQSKVVAPNQYQ 210
           A  A +AL   +V   +  P Q +
Sbjct: 60  ALEAQNALHNMKVLPGMHHPIQMK 83

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 41.3 bits (97), Expect = 4e-05
 Identities = 20/91 (21%), Positives = 34/91 (37%), Gaps = 5/91 (5%)

Query: 109 PSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-K 167
             ++ R     G   E       S TL+V  L    +  ++  +F      K++ +   K
Sbjct: 16  ELSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDK 75

Query: 168 ESRHPGGDPLILCFVDFVSPAHAATAMDALQ 198
             +   G     CFV++ S A A  AM  + 
Sbjct: 76  MKKTACG----FCFVEYYSRADAENAMRYIN 102

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 40.4 bits (94), Expect = 8e-05
 Identities = 16/97 (16%), Positives = 29/97 (29%), Gaps = 7/97 (7%)

Query: 101 GIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPF---V 157
           G+       ++      +G G   +         + + GLP  CS  +V +         
Sbjct: 13  GLVPRGSHMASMTGGQQMGRGSMMLGPEGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHD 72

Query: 158 GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           G   V  +        G+     FV+  S      A+
Sbjct: 73  GAAGVHFIYTREGRQSGE----AFVELGSEDDVKMAL 105

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

 Score = 39.1 bits (92), Expect = 9e-05
 Identities = 20/78 (25%), Positives = 32/78 (41%), Gaps = 5/78 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLIL 179
           G S     PD +  L V GL    + R++  +F  +    +V +V  ++SR   G     
Sbjct: 4   GSSGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRG----F 59

Query: 180 CFVDFVSPAHAATAMDAL 197
            FV F +   A  A +  
Sbjct: 60  AFVYFENVDDAKEAKERA 77

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 39.4 bits (92), Expect = 9e-05
 Identities = 16/67 (23%), Positives = 23/67 (34%), Gaps = 9/67 (13%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
            + +  + LP+     E+   F  F     V L        GG   I   V+F+ P  A 
Sbjct: 10  KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLL------PEGG---ITAIVEFLEPLEAR 60

Query: 192 TAMDALQ 198
            A   L 
Sbjct: 61  KAFRHLA 67

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

 Score = 39.7 bits (93), Expect = 1e-04
 Identities = 24/123 (19%), Positives = 40/123 (32%), Gaps = 15/123 (12%)

Query: 77  SGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLF 136
                  H S G+  R      + G   M  G  +  R           P   +  ++L 
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMASMTGGQQMGRGSMSYGRP----------PPDVEGMTSLK 51

Query: 137 VEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHAATAMD 195
           V+ L    S   +  +F  +    +V +   + ++   G      FV F     A  AMD
Sbjct: 52  VDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRG----FAFVRFHDKRDAEDAMD 107

Query: 196 ALQ 198
           A+ 
Sbjct: 108 AMD 110

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 115

 Score = 39.2 bits (92), Expect = 1e-04
 Identities = 13/73 (17%), Positives = 27/73 (36%), Gaps = 7/73 (9%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV--SKESRHPGGDPLILCFVDFV 185
           P + +  L+++ L    + R++  +F  F   K   +       R  G       F+ F 
Sbjct: 21  PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRG-----QAFITFP 75

Query: 186 SPAHAATAMDALQ 198
           +   A  A+  + 
Sbjct: 76  NKEIAWQALHLVN 88

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 6/77 (7%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLI 178
            G S   LP +   T +V  LP +  + ++  IF+     + VRLV  K++    G    
Sbjct: 3   SGSSGKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKG---- 57

Query: 179 LCFVDFVSPAHAATAMD 195
            C+V+F        A+ 
Sbjct: 58  FCYVEFDEVDSLKEALT 74

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 38.8 bits (91), Expect = 2e-04
 Identities = 20/87 (22%), Positives = 32/87 (36%), Gaps = 14/87 (16%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIF--------RPFVGYKEVRLVS-KESR 170
           G         D ++T+FV+GL  + +   VA  F            G   + L + +E+ 
Sbjct: 2   GHHHHHHSHSD-NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETG 60

Query: 171 HPGGDPLILCFVDFVSPAHAATAMDAL 197
              G+      V F  P  A  A+D  
Sbjct: 61  KLKGE----ATVSFDDPPSAKAAIDWF 83

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

 Score = 38.7 bits (91), Expect = 2e-04
 Identities = 17/79 (21%), Positives = 26/79 (32%), Gaps = 5/79 (6%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLI 178
           G         D   TL V+ L    S   +  +F  +    +V +     ++ P G    
Sbjct: 1   GSSGSSGPDVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRG---- 56

Query: 179 LCFVDFVSPAHAATAMDAL 197
             FV F     A  A  A+
Sbjct: 57  FAFVRFHDRRDAQDAEAAM 75

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 96

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 17/71 (23%), Positives = 34/71 (47%), Gaps = 8/71 (11%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
              A+ TL  + L  + +  E+  +F   +   E+RLVS++ +  G     + +++F S 
Sbjct: 12  KVRAARTLLAKNLSFNITEDELKEVFEDAL---EIRLVSQDGKSKG-----IAYIEFKSE 63

Query: 188 AHAATAMDALQ 198
           A A   ++  Q
Sbjct: 64  ADAEKNLEEKQ 74

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 101

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 13/86 (15%), Positives = 31/86 (36%), Gaps = 9/86 (10%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
            G S   +    S  L +  LP + +  EV  +  PF     + ++  +++         
Sbjct: 3   SGSSGDKMDGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQ--------- 53

Query: 180 CFVDFVSPAHAATAMDALQVQSKVVA 205
            F++  +   A T ++     +  + 
Sbjct: 54  AFLELATEEAAITMVNYYSAVTPHLR 79

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 38.2 bits (89), Expect = 2e-04
 Identities = 14/66 (21%), Positives = 26/66 (39%), Gaps = 10/66 (15%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           SS + V+ LP D + +EV  + + +   K   +     R+         FV  ++   A 
Sbjct: 5   SSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYV----DRNKR-----TAFVTLLNGEQAQ 54

Query: 192 TAMDAL 197
            A+   
Sbjct: 55  NAIQMF 60

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 101

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 11/70 (15%), Positives = 21/70 (30%), Gaps = 4/70 (5%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFV 185
                    LF+  L  + S  E+           ++ +V   +           +VDF 
Sbjct: 11  GSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRK----FGYVDFE 66

Query: 186 SPAHAATAMD 195
           S      A++
Sbjct: 67  SAEDLEKALE 76

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A Length = 150

 Score = 39.5 bits (92), Expect = 2e-04
 Identities = 15/70 (21%), Positives = 27/70 (38%), Gaps = 8/70 (11%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
                  ++V  L ++ ++ E+   F  +   + V +       PG       FV+F  P
Sbjct: 69  SCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVA---RNPPG-----FAFVEFEDP 120

Query: 188 AHAATAMDAL 197
             AA A+  L
Sbjct: 121 RDAADAVREL 130

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 39.1 bits (91), Expect = 2e-04
 Identities = 8/77 (10%), Positives = 24/77 (31%), Gaps = 10/77 (12%)

Query: 126 PLPPDASSTLFVEGLPSDCS----RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCF 181
           P   + S  + +  +  +      +  +  +        ++  V     + G       +
Sbjct: 23  PPHTEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIV-VDLSDDNSG-----KAY 76

Query: 182 VDFVSPAHAATAMDALQ 198
           + F +   A   ++A Q
Sbjct: 77  IVFATQESAQAFVEAFQ 93

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

 Score = 38.9 bits (91), Expect = 2e-04
 Identities = 18/75 (24%), Positives = 31/75 (41%), Gaps = 13/75 (17%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPF--------VGYKEVRLVS-KESRHPGGDPLILCFV 182
           ++T+FV+GL  + +   VA  F+           G   + L + +E+    G+      V
Sbjct: 7   NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGE----ATV 62

Query: 183 DFVSPAHAATAMDAL 197
            F  P  A  A+D  
Sbjct: 63  SFDDPPSAKAAIDWF 77

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 17/81 (20%), Positives = 31/81 (38%), Gaps = 6/81 (7%)

Query: 117 GLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDP 176
           G+ GG        +    ++V  LP D   +++  +F  +   +++ L  K  R      
Sbjct: 7   GMSGGGVIRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL--KNRRGGPP-- 62

Query: 177 LILCFVDFVSPAHAATAMDAL 197
               FV+F  P  A  A+   
Sbjct: 63  --FAFVEFEDPRDAEDAVYGR 81

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 39.5 bits (93), Expect = 2e-04
 Identities = 18/82 (21%), Positives = 37/82 (45%), Gaps = 8/82 (9%)

Query: 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAH 189
           + + L V  LP + ++ E   +F      +  +LV  K +    G      FV+++ P  
Sbjct: 1   SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLG----YGFVNYIDPKD 56

Query: 190 AATAMDAL---QVQSKVVAPNQ 208
           A  A++ L   ++Q+K +  + 
Sbjct: 57  AEKAINTLNGLRLQTKTIKVSY 78

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 38.0 bits (89), Expect = 2e-04
 Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 6/80 (7%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPL 177
           G       L P   ST++V  LP   +  ++  IF  +    +V ++  K++R   G   
Sbjct: 4   GSSGMSGGLAPS-KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKG--- 59

Query: 178 ILCFVDFVSPAHAATAMDAL 197
            + F+ F+    A     A+
Sbjct: 60  -VAFILFLDKDSAQNCTRAI 78

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

 Score = 37.6 bits (88), Expect = 2e-04
 Identities = 15/79 (18%), Positives = 30/79 (37%), Gaps = 11/79 (13%)

Query: 121 GRSEVPLPPDAS-STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
           G S      D + +TL+V GL    +  ++ + F  F   + + +V ++           
Sbjct: 1   GSSGSS-GEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC--------- 50

Query: 180 CFVDFVSPAHAATAMDALQ 198
            F+ F +   A  A +   
Sbjct: 51  AFIQFATRQAAEVAAEKSF 69

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

 Score = 38.3 bits (89), Expect = 3e-04
 Identities = 13/87 (14%), Positives = 30/87 (34%), Gaps = 9/87 (10%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLI 178
           G            S  + +  LP D +  EV  +  PF     + ++  +++        
Sbjct: 3   GSHHHHHHGSGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQ-------- 54

Query: 179 LCFVDFVSPAHAATAMDALQVQSKVVA 205
             F++  +   A T ++     + V+ 
Sbjct: 55  -AFIEMNTEEAANTMVNYYTSVTPVLR 80

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 39.1 bits (92), Expect = 3e-04
 Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 9/88 (10%)

Query: 131 ASST-LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPA 188
           AS+T L V  LP D + RE+  +FR        R++   ++ +  G      FVDF S  
Sbjct: 1   ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYG----YAFVDFTSEM 56

Query: 189 HAATAMDAL---QVQSKVVAPNQYQSGS 213
            +  A+  L    V++K +  +  + G 
Sbjct: 57  DSQRAIKVLNGITVRNKRLKVSYARPGG 84

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens} Length = 88

 Score = 37.5 bits (88), Expect = 3e-04
 Identities = 10/68 (14%), Positives = 25/68 (36%), Gaps = 6/68 (8%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS--KESRHPGGDPLILCFVDFVSPAH 189
            + + +  L  + ++  +  IF  +   K + +           G      +V+F +P  
Sbjct: 4   PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKG----YAYVEFENPDE 59

Query: 190 AATAMDAL 197
           A  A+  +
Sbjct: 60  AEKALKHM 67

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 97

 Score = 37.6 bits (88), Expect = 4e-04
 Identities = 14/83 (16%), Positives = 29/83 (34%), Gaps = 12/83 (14%)

Query: 119 GGGRSEVPL---PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGD 175
           G   S   +     + ++ L+V GL  + S   +A  F  F   + +  V    +     
Sbjct: 1   GSSGSSGKIGYGKANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHV----KGDS-- 54

Query: 176 PLILCFVDFVSPAHAATAMDALQ 198
                ++ + S   A  A   ++
Sbjct: 55  ---FAYIQYESLDAAQAACAKMR 74

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 119

 Score = 38.0 bits (88), Expect = 4e-04
 Identities = 18/106 (16%), Positives = 37/106 (34%), Gaps = 11/106 (10%)

Query: 100 VGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGY 159
           +G        S+     G   G S     P  S  + +  LP D +  EV  +  PF   
Sbjct: 1   MGSSHHHHHHSSGLVPRGSHMGDSRSAGVP--SRVIHIRKLPIDVTEGEVISLGLPFGKV 58

Query: 160 KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA 205
             + ++  +++          F++  +   A T ++     + V+ 
Sbjct: 59  TNLLMLKGKNQ---------AFIEMNTEEAANTMVNYYTSVTPVLR 95

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 37.3 bits (87), Expect = 5e-04
 Identities = 17/77 (22%), Positives = 26/77 (33%), Gaps = 5/77 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           G S           L V  +P      ++  +F  F    +V ++  E    G       
Sbjct: 4   GSSGNSESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKG-----FG 58

Query: 181 FVDFVSPAHAATAMDAL 197
           FV F + A A  A + L
Sbjct: 59  FVTFENSADADRAREKL 75

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 99

 Score = 37.3 bits (87), Expect = 5e-04
 Identities = 16/65 (24%), Positives = 21/65 (32%), Gaps = 9/65 (13%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
            L+V  L    S   +   F         R+  K+ R          FV F +   A  A
Sbjct: 17  ILYVRNLMLSTSEEMIEKEFNNIKPGAVERV--KKIRD-------YAFVHFSNREDAVEA 67

Query: 194 MDALQ 198
           M AL 
Sbjct: 68  MKALN 72

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Length = 97

 Score = 36.8 bits (86), Expect = 6e-04
 Identities = 15/77 (19%), Positives = 31/77 (40%), Gaps = 12/77 (15%)

Query: 128 PPDA--SSTLFVEGLPSDCS----RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCF 181
            P+   + T+++  L         ++ +  IF  F    ++  VS+  +  G       F
Sbjct: 2   VPETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDIL-VSRSLKMRGQ-----AF 55

Query: 182 VDFVSPAHAATAMDALQ 198
           V F   + A  A+ ++Q
Sbjct: 56  VIFKEVSSATNALRSMQ 72

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Length = 106

 Score = 36.9 bits (86), Expect = 7e-04
 Identities = 13/79 (16%), Positives = 29/79 (36%), Gaps = 5/79 (6%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLI 178
           G      +    +  LF+  +P +   +++  +F  F    E+ ++  + +    G    
Sbjct: 1   GSSGSSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKG---- 56

Query: 179 LCFVDFVSPAHAATAMDAL 197
             F+ +     A  A  AL
Sbjct: 57  CAFLTYCERESALKAQSAL 75

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

 Score = 37.9 bits (88), Expect = 7e-04
 Identities = 22/119 (18%), Positives = 37/119 (31%), Gaps = 13/119 (10%)

Query: 81  SARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGL 140
            A+H  G       +      I   +   +  D  L  G  RS           LFV  +
Sbjct: 29  KAKHRKGRGFGSDSNTRE--AIHSYERVRNEDDDELEPGPQRSV------EGWILFVTSI 80

Query: 141 PSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHAATAMDALQ 198
             +    E+   F  +   K + L   + +    G       V++ +   A  A +AL 
Sbjct: 81  HEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKG----YALVEYETHKQALAAKEALN 135

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 38.0 bits (89), Expect = 7e-04
 Identities = 19/100 (19%), Positives = 31/100 (31%), Gaps = 15/100 (15%)

Query: 109 PSAKDRALGLGG----------GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVG 158
                +A+   G           R     P   +  LF+ GLP+  +  +V  +   F  
Sbjct: 61  VDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGP 120

Query: 159 YKEVRLVS-KESRHPGGDPLILCFVDFVSPAHAATAMDAL 197
            K   LV    +    G      F ++V       A+  L
Sbjct: 121 LKAFNLVKDSATGLSKG----YAFCEYVDINVTDQAIAGL 156

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ALT splicing, mRNA processing, mRNA splicing; 1.85A {Homo sapiens} PDB: 2kyx_A 3lpy_A* Length = 85

 Score = 36.4 bits (85), Expect = 8e-04
 Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 7/70 (10%)

Query: 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KES-RHPGGDPLILCFVDFVSP 187
                L+V GL  +   + +   F PF    ++++    E+ +H G       FV+F   
Sbjct: 5   TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRG-----FAFVEFELA 59

Query: 188 AHAATAMDAL 197
             AA A+D +
Sbjct: 60  EDAAAAIDNM 69

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens} Length = 95

 Score = 36.5 bits (85), Expect = 8e-04
 Identities = 17/82 (20%), Positives = 28/82 (34%), Gaps = 6/82 (7%)

Query: 117 GLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGD 175
           G  G     P   +A  T+FV  L +      +  +F       +V +   +E +     
Sbjct: 1   GSSGSSGMFPAQEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKS-- 58

Query: 176 PLILCFVDFVSPAHAATAMDAL 197
                FV F  P   + A+  L
Sbjct: 59  ---FGFVCFKHPESVSYAIALL 77

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Length = 104

 Score = 36.7 bits (85), Expect = 8e-04
 Identities = 13/88 (14%), Positives = 24/88 (27%), Gaps = 9/88 (10%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           G S        S  + V GL       ++      F     V ++  + +          
Sbjct: 4   GSSGSHHKVSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQ---------A 54

Query: 181 FVDFVSPAHAATAMDALQVQSKVVAPNQ 208
            V+F +   A   +         +A  Q
Sbjct: 55  LVEFENIDSAKECVTFAADVPVYIAGQQ 82

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

 Score = 36.6 bits (85), Expect = 9e-04
 Identities = 13/70 (18%), Positives = 22/70 (31%), Gaps = 5/70 (7%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHP-GGDPLILCFVDFVSP 187
                 +    L  +     +  + R +   +EV ++     HP     L L  V F S 
Sbjct: 3   QIPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEIL----LHPRTRKHLGLARVLFTST 58

Query: 188 AHAATAMDAL 197
             A   +  L
Sbjct: 59  RGAKETVKNL 68

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	214
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.85
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.82
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.82
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.82
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.81
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.81
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.81
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.81
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.81
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.81
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.8
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.8
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.8
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.8
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.8
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.8
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.8
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.8
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.8
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.79
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.79
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.79
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.79
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.79
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.79
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.79
2div_A	99	TRNA selenocysteine associated protein; structural	99.79
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.79
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.79
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.79
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.79
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.79
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.79
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.79
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.79
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.79
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.78
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.78
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.78
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.78
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.78
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.78
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.78
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.78
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.78
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.78
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.78
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.78
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.78
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.77
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.77
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.77
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.77
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.77
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.77
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.77
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.77
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.76
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.76
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.76
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.76
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.76
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.76
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.76
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.76
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.76
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.76
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.76
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.76
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.76
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.76
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.76
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.75
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.75
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.75
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.75
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.75
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.75
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.75
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.75
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.75
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.75
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.75
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.74
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.74
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.74
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.74
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.73
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.73
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.73
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.73
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.73
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.73
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.73
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.73
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.73
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.73
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.73
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.73
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.73
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.73
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.73
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.73
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.73
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.73
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.72
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.72
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.72
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.72
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.72
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.72
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.72
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.72
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.71
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.71
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.71
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.71
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.71
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.71
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.7
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.7
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.7
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.7
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.7
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.7
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.7
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.7
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.7
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.7
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.7
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.69
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.69
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.69
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.69
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.69
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.69
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.69
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.68
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.51
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.68
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.68
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.68
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.68
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.67
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.67
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.67
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.67
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.67
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.66
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.66
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.66
1x5p_A	97	Negative elongation factor E; structure genomics,	99.66
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.66
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.66
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.66
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.65
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.65
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.65
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.65
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.65
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.65
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.64
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.64
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.64
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.63
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.63
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.63
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.62
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.62
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.62
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.61
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.61
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.61
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.6
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.6
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.6
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.59
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.58
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.58
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.57
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.57
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.56
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.55
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.55
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.54
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.53
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.52
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.52
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.52
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.51
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.48
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.48
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.47
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.46
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.46
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.46
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.46
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.45
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.43
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.42
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.42
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.38
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.36
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.18
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.15
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.99
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.83
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.81
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.19
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	97.97
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.39
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	97.37
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.35
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	97.34
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	96.62
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	96.36
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.8
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	95.24
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	94.4
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	91.52

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=99.85  E-value=4.5e-21  Score=142.83  Aligned_cols=79  Identities=19%  Similarity=0.312  Sum_probs=74.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++++++
T Consensus        19 gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~t---g~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~   95 (99)
T 4fxv_A           19 GTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVA---GHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSY   95 (99)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSS---CCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCC---CcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            679999999999999999999999999999999998743   77888999999999999999999999999999999987


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        96 Ak   97 (99)
T 4fxv_A           96 AR   97 (99)
T ss_dssp             CC
T ss_pred             ee
Confidence            64

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

Probab=99.82  E-value=6.5e-20  Score=139.26  Aligned_cols=78  Identities=17%  Similarity=0.117  Sum_probs=73.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++++..
T Consensus         6 ~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~t---g~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~   82 (110)
T 3s8s_A            6 LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRT---RKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQL   82 (110)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCC---CceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            689999999999999999999999999999999999743   67888999999999999999999999999999998875


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        83 a   83 (110)
T 3s8s_A           83 D   83 (110)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.82  E-value=8.2e-20  Score=132.77  Aligned_cols=80  Identities=15%  Similarity=0.219  Sum_probs=73.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.+++++++
T Consensus        15 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   91 (94)
T 2e5h_A           15 SKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDT---RKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKAS   91 (94)
T ss_dssp             CTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSS---CCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCC---CCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEE
Confidence            3789999999999999999999999999999999998743   5667799999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        92 ~ak   94 (94)
T 2e5h_A           92 IAI   94 (94)
T ss_dssp             ECC
T ss_pred             ecC
Confidence            653

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

Probab=99.82  E-value=4.5e-20  Score=132.01  Aligned_cols=81  Identities=21%  Similarity=0.325  Sum_probs=74.5

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .++++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++.+++
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~   79 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTT---NKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQ   79 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSS---CSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC---CCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEee
Confidence            34789999999999999999999999999999999998733   667779999999999999999999999999999999


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ++.+
T Consensus        80 ~~~~   83 (85)
T 1x4e_A           80 SGPS   83 (85)
T ss_dssp             SCCC
T ss_pred             cCCC
Confidence            8765

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

Probab=99.81  E-value=1.1e-19  Score=132.20  Aligned_cols=81  Identities=19%  Similarity=0.155  Sum_probs=74.9

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .++++|||+|||.++++++|+++|++||.|..|+++.++.+   |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   89 (95)
T 2cqc_A           13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQS---RRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   89 (95)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSS---SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCC---CCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            34889999999999999999999999999999999998743   677889999999999999999999999999999999


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      +..+
T Consensus        90 ~~a~   93 (95)
T 2cqc_A           90 SGPS   93 (95)
T ss_dssp             ECCS
T ss_pred             EecC
Confidence            8765

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

Probab=99.81  E-value=1.3e-19  Score=133.43  Aligned_cols=83  Identities=22%  Similarity=0.251  Sum_probs=75.7

Q ss_pred             CCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEE--------EEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC
Q 028098          127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKE--------VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (214)
Q Consensus       127 ~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~--------vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln  198 (214)
                      .++...++|||+|||.++++++|+++|++||.|.+        |+++.++.+   |+++|||||+|.+.++|++|++.||
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~---g~~~G~afV~f~~~~~a~~Ai~~l~   84 (99)
T 2la6_A            8 HSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRET---GKLKGEATVSFDDPPSAKAAIDWFD   84 (99)
T ss_dssp             CSCCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTT---CSEEEEEEEEBSSHHHHHHHHHHHT
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCC---CCeeeEEEEEECCHHHHHHHHHHhC
Confidence            34456899999999999999999999999999999        999998743   6788899999999999999999999


Q ss_pred             CCeecccccccccC
Q 028098          199 VQSKVVAPNQYQSG  212 (214)
Q Consensus       199 G~~l~~~P~~~~~~  212 (214)
                      |..|.+++++++..
T Consensus        85 g~~~~g~~l~V~~A   98 (99)
T 2la6_A           85 GKEFSGNPIKVSFA   98 (99)
T ss_dssp             TCBSSSSBCEEEEC
T ss_pred             CCEeCCcEEEEEec
Confidence            99999999998765

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A

Probab=99.81  E-value=1.8e-19  Score=136.15  Aligned_cols=80  Identities=16%  Similarity=0.283  Sum_probs=74.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +.++|||+|||+++++++|+++|++||.|++|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.+++++++
T Consensus        24 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~  100 (115)
T 2cpz_A           24 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQT---NLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQ  100 (115)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSS---CSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCC---CCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            4789999999999999999999999999999999998743   6788899999999999999999999999999999988


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus       101 ~a~  103 (115)
T 2cpz_A          101 LKR  103 (115)
T ss_dssp             CCC
T ss_pred             EcC
Confidence            754

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

Probab=99.81  E-value=5.7e-20  Score=139.74  Aligned_cols=76  Identities=16%  Similarity=0.171  Sum_probs=70.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||+++++++|+++|++||.|++|+|+.++     +.+||||||+|.+.++|++|++.|||..|.++++.+..
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~-----~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~   79 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE-----NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGR   79 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEET-----TEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecC-----CCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            6799999999999999999999999999999999986     34677999999999999999999999999999998865


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        80 a   80 (115)
T 4f25_A           80 F   80 (115)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.81  E-value=1.5e-19  Score=131.53  Aligned_cols=80  Identities=21%  Similarity=0.275  Sum_probs=73.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+++.++.+   |+++|||||+|.+.++|++|++.|||..|.++++++.
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   80 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDT---GRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVG   80 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSS---CCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCC---CceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEE
Confidence            4789999999999999999999999999999999998743   5677799999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        81 ~a~   83 (95)
T 2dnz_A           81 HVT   83 (95)
T ss_dssp             ESS
T ss_pred             Ecc
Confidence            653

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

Probab=99.81  E-value=8.8e-20  Score=130.62  Aligned_cols=80  Identities=20%  Similarity=0.234  Sum_probs=73.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+++.++.+   |+++|||||+|.+.++|++|++.|||..+.++++++.
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   81 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMAT---GKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTN   81 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCC---CccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence            4789999999999999999999999999999999998633   6788899999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        82 ~a~   84 (87)
T 3bs9_A           82 WAT   84 (87)
T ss_dssp             EEC
T ss_pred             ecC
Confidence            654

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.80  E-value=1.1e-19  Score=132.33  Aligned_cols=80  Identities=21%  Similarity=0.258  Sum_probs=74.2

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .++++|||+|||+++++++|+++|++||.|.+|+|+.++.    |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        14 ~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   89 (95)
T 2ywk_A           14 EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE----GKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINV   89 (95)
T ss_dssp             TGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT----SCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCC----CCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEE
Confidence            3478999999999999999999999999999999999874    677889999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      +..+
T Consensus        90 ~~a~   93 (95)
T 2ywk_A           90 SGPS   93 (95)
T ss_dssp             ECCC
T ss_pred             EEcC
Confidence            8764

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

Probab=99.80  E-value=4.2e-19  Score=134.43  Aligned_cols=80  Identities=20%  Similarity=0.269  Sum_probs=73.3

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .++++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        38 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~---g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V  114 (118)
T 2khc_A           38 PEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQT---SLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKV  114 (118)
T ss_dssp             CCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSS---SCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCC---CCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            34789999999999999999999999999999999988633   567779999999999999999999999999999998


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      ++.
T Consensus       115 ~~a  117 (118)
T 2khc_A          115 QLK  117 (118)
T ss_dssp             EEC
T ss_pred             Eec
Confidence            764

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

Probab=99.80  E-value=2.3e-19  Score=132.80  Aligned_cols=80  Identities=19%  Similarity=0.273  Sum_probs=74.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|..|+|+.++..   |+++|||||+|.+.++|++|++.|||..|.++++++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   90 (103)
T 2cq0_A           14 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTT---GQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVE   90 (103)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSS---CSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCC---CceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEE
Confidence            4799999999999999999999999999999999998733   6788899999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        91 ~a~   93 (103)
T 2cq0_A           91 WAK   93 (103)
T ss_dssp             ESS
T ss_pred             ECC
Confidence            653

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=2.3e-19  Score=133.06  Aligned_cols=81  Identities=19%  Similarity=0.231  Sum_probs=74.1

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +.+++|||+|||+++++++|+++|++||.|.+|+|+.++..   |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v   89 (105)
T 1x5u_A           13 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVT---GQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRV   89 (105)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSS---CSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC---CcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence            34789999999999999999999999999999999998732   667789999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+.+
T Consensus        90 ~~a~   93 (105)
T 1x5u_A           90 NKAS   93 (105)
T ss_dssp             EETT
T ss_pred             EECC
Confidence            7654

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

Probab=99.80  E-value=1.4e-19  Score=128.96  Aligned_cols=80  Identities=18%  Similarity=0.271  Sum_probs=73.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+++.++.+   |+++|||||+|.+.++|++|++.|||..+.+++++++
T Consensus         6 ~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   82 (85)
T 3mdf_A            6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYET---EKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN   82 (85)
T ss_dssp             CSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTT---TEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCC---CccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            4789999999999999999999999999999999988632   5677799999999999999999999999999999988


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        83 ~ak   85 (85)
T 3mdf_A           83 LAK   85 (85)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            753

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=99.80  E-value=4.8e-19  Score=131.33  Aligned_cols=79  Identities=24%  Similarity=0.306  Sum_probs=73.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc---ccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV---APN  207 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~---~P~  207 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+|+.++.    |+++|||||+|.+.++|++|++.|||..+.+   +++
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l   89 (105)
T 2dnh_A           14 RDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD----GSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSL   89 (105)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSS----SCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC----CCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccE
Confidence            478999999999999999999999999999999999873    6778899999999999999999999999998   999


Q ss_pred             ccccCC
Q 028098          208 QYQSGS  213 (214)
Q Consensus       208 ~~~~~~  213 (214)
                      .+++..
T Consensus        90 ~V~~a~   95 (105)
T 2dnh_A           90 VVKFAD   95 (105)
T ss_dssp             EEEESC
T ss_pred             EEEECc
Confidence            887654

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A

Probab=99.80  E-value=1.5e-19  Score=134.29  Aligned_cols=81  Identities=19%  Similarity=0.304  Sum_probs=73.4

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee---cccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK---VVAP  206 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l---~~~P  206 (214)
                      ...++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..+   .+++
T Consensus        11 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~   87 (106)
T 2dgp_A           11 HDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFT---GMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRP   87 (106)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSS---CSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCC---CCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCce
Confidence            34789999999999999999999999999999999998743   66777999999999999999999999998   8899


Q ss_pred             cccccCC
Q 028098          207 NQYQSGS  213 (214)
Q Consensus       207 ~~~~~~~  213 (214)
                      ++++...
T Consensus        88 l~v~~a~   94 (106)
T 2dgp_A           88 IQVKPAD   94 (106)
T ss_dssp             CEEEECC
T ss_pred             EEEEECC
Confidence            9887654

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=6e-19  Score=132.03  Aligned_cols=78  Identities=15%  Similarity=0.278  Sum_probs=70.6

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .++++|||+|||.++++++|+++|++||.|+.|+|+.+.      +++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        20 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~------~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V   93 (109)
T 1x4a_A           20 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRR------GGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRV   93 (109)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSS------SSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC------CCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence            347899999999999999999999999999999997653      35569999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ++.+
T Consensus        94 ~~a~   97 (109)
T 1x4a_A           94 EFPR   97 (109)
T ss_dssp             ECCC
T ss_pred             EEcc
Confidence            7754

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

Probab=99.80  E-value=2.2e-19  Score=132.89  Aligned_cols=80  Identities=19%  Similarity=0.156  Sum_probs=73.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++.+.
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~   88 (103)
T 2dnm_A           12 GMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHT---KAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQ   88 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSS---CSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEE
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCC---CCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEE
Confidence            4789999999999999999999999999999999998743   5677799999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        89 ~a~   91 (103)
T 2dnm_A           89 VAR   91 (103)
T ss_dssp             ECS
T ss_pred             ECC
Confidence            654

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

Probab=99.79  E-value=4.9e-20  Score=136.92  Aligned_cols=79  Identities=13%  Similarity=0.195  Sum_probs=71.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCC--eEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC----eeccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVG--YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ----SKVVA  205 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~--i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~----~l~~~  205 (214)
                      -+||||+|||+++|+++|+++|++||.  +.+|+|+.++.+   |++||||||+|.+.++|++|++.|||.    .|.++
T Consensus         9 m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~t---g~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr   85 (95)
T 2lkz_A            9 MDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQT---QQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGK   85 (95)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSS---SSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTE
T ss_pred             cCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCC---CCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCE
Confidence            679999999999999999999999995  679999999743   677889999999999999999999997    58999


Q ss_pred             ccccccCC
Q 028098          206 PNQYQSGS  213 (214)
Q Consensus       206 P~~~~~~~  213 (214)
                      ++.+.+.+
T Consensus        86 ~i~V~~Ak   93 (95)
T 2lkz_A           86 TIGVDFAK   93 (95)
T ss_dssp             EEEEEECC
T ss_pred             EEEEEEcc
Confidence            99988764

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.79  E-value=3.9e-19  Score=126.13  Aligned_cols=79  Identities=24%  Similarity=0.302  Sum_probs=73.0

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +.+|||+|||.++++++|+++|++||.|.+|+++.++.+   |+++|||||+|.+.++|++|++.|||..+.++++.+++
T Consensus         1 t~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~---~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~   77 (83)
T 3md1_A            1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQT---GSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINW   77 (83)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTT---CCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCC---CCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEe
Confidence            368999999999999999999999999999999998643   67888999999999999999999999999999999887


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        78 a~   79 (83)
T 3md1_A           78 AA   79 (83)
T ss_dssp             CC
T ss_pred             cC
Confidence            64

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

Probab=99.79  E-value=5.6e-19  Score=130.73  Aligned_cols=80  Identities=19%  Similarity=0.273  Sum_probs=73.5

Q ss_pred             CCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       129 ~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      +.+.++|||+|||+++++++|+++|++||.|.+|+|+.+ .    |+++|||||+|.+.++|++|++.|||..|.+++++
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~----g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   86 (103)
T 2d9p_A           12 RYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME-G----GRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLY   86 (103)
T ss_dssp             CSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEEC-S----SSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC-C----CCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEE
Confidence            345889999999999999999999999999999999988 2    67788999999999999999999999999999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +.+.+
T Consensus        87 V~~a~   91 (103)
T 2d9p_A           87 VALAQ   91 (103)
T ss_dssp             EEECS
T ss_pred             EEEec
Confidence            87653

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

Probab=99.79  E-value=2.5e-20  Score=136.52  Aligned_cols=79  Identities=20%  Similarity=0.263  Sum_probs=70.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC-CCeeccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ-VQSKVVAPNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG-~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln-G~~l~~~P~~~  209 (214)
                      +++|||+|||+++|+++|+++|++|| .|++|+|+.++.+   |+++|||||+|.+.++|++|++.|+ +..|.++++++
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t---~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V   77 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSS---GQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSM   77 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSS---CCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCC---CCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEE
Confidence            57999999999999999999999999 8999999998743   6777899999999999999999874 56899999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      +...
T Consensus        78 ~~a~   81 (91)
T 2lxi_A           78 HYSD   81 (91)
T ss_dssp             ECCC
T ss_pred             EEcC
Confidence            7654

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

Probab=99.79  E-value=5.2e-19  Score=133.34  Aligned_cols=81  Identities=19%  Similarity=0.231  Sum_probs=74.4

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .+.++|||+|||+++++++|+++|++||.|..|+|+.++..   |+++|||||+|.+.++|++|++.|||..|.++++.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   89 (115)
T 2dgo_A           13 SNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMAT---GKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRT   89 (115)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCC---CCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            34889999999999999999999999999999999998633   678889999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+.+
T Consensus        90 ~~a~   93 (115)
T 2dgo_A           90 NWAT   93 (115)
T ss_dssp             EESS
T ss_pred             EEcc
Confidence            7653

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

Probab=99.79  E-value=5.8e-19  Score=127.74  Aligned_cols=78  Identities=17%  Similarity=0.135  Sum_probs=72.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|..|+|+.+.     |+++|||||+|.+.++|++|++.|||..|.+++++++
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~-----g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~   81 (92)
T 2dgv_A            7 GACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMEN-----GKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVR   81 (92)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESS-----SCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccC-----CCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            47899999999999999999999999999999999853     6778899999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        82 ~a~   84 (92)
T 2dgv_A           82 IDR   84 (92)
T ss_dssp             ECS
T ss_pred             EcC
Confidence            654

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

Probab=99.79  E-value=6.8e-19  Score=129.38  Aligned_cols=79  Identities=19%  Similarity=0.396  Sum_probs=72.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++ |||..|.++++.+.
T Consensus         9 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~   84 (99)
T 2dgs_A            9 KSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEK---QRPRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVK   84 (99)
T ss_dssp             SCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTT---CSCCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCC---CCCCceEEEEECCHHHHHHHHH-hCCCEECCeEEEEE
Confidence            4789999999999999999999999999999999998743   5677799999999999999998 99999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ...
T Consensus        85 ~a~   87 (99)
T 2dgs_A           85 RAE   87 (99)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            653

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

Probab=99.79  E-value=3e-19  Score=131.14  Aligned_cols=80  Identities=16%  Similarity=0.266  Sum_probs=73.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeE-EEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc---
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYK-EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP---  206 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~-~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P---  206 (214)
                      ++++|||+|||.++++++|+++|++||.|. +|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.+++   
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~   84 (99)
T 2div_A            8 MAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLT---GIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAK   84 (99)
T ss_dssp             SSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSS---CCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCC---CCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcce
Confidence            478999999999999999999999999999 9999998743   678889999999999999999999999999999   


Q ss_pred             -cccccCC
Q 028098          207 -NQYQSGS  213 (214)
Q Consensus       207 -~~~~~~~  213 (214)
                       +++++.+
T Consensus        85 ~l~v~~a~   92 (99)
T 2div_A           85 RFKLNYAT   92 (99)
T ss_dssp             ECCEEETT
T ss_pred             eEEEeecC
Confidence             8877653

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

Probab=99.79  E-value=6.6e-19  Score=129.68  Aligned_cols=79  Identities=23%  Similarity=0.420  Sum_probs=73.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+|+.++.    |+++|||||+|.+.++|++|++.|||..|.++++++.
T Consensus        16 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   91 (100)
T 2do4_A           16 EKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA----GKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVA   91 (100)
T ss_dssp             CCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT----SCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCC----CCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            478999999999999999999999999999999999873    6778899999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        92 ~a~   94 (100)
T 2do4_A           92 ISN   94 (100)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            653

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

Probab=99.79  E-value=5.9e-19  Score=131.07  Aligned_cols=80  Identities=26%  Similarity=0.384  Sum_probs=73.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeC-CCCCCCCCcccEEEEEecCHHHHHHHHHHh-CCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK-ESRHPGGDPLILCFVDFVSPAHAATAMDAL-QVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~-k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L-nG~~l~~~P~~  208 (214)
                      .+++|||+|||+++++++|+++|++||.|.+|+|+.+ +..   |+++|||||+|.+.++|++|++.| ||..|.++++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~   90 (107)
T 2cph_A           14 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGT---GAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLV   90 (107)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSS---CSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCC---CCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEE
Confidence            4789999999999999999999999999999999988 422   567779999999999999999999 99999999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +++.+
T Consensus        91 v~~a~   95 (107)
T 2cph_A           91 LEWAD   95 (107)
T ss_dssp             EEECC
T ss_pred             EEeCC
Confidence            87754

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

Probab=99.79  E-value=4e-19  Score=130.10  Aligned_cols=79  Identities=13%  Similarity=0.166  Sum_probs=73.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..+.++++++..
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~   78 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQT---GRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGY   78 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTT---CCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCC---CccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            789999999999999999999999999999999998743   66777999999999999999999999999999999876


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        79 a~   80 (96)
T 2x1f_A           79 SS   80 (96)
T ss_dssp             CS
T ss_pred             cC
Confidence            54

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=1e-18  Score=129.29  Aligned_cols=78  Identities=18%  Similarity=0.226  Sum_probs=71.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||.++++++|+++|++||.|.+|+|+.++.+     ++|||||+|.+.++|++|++.|||..|.++++.+.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   88 (103)
T 2cq3_A           14 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-----SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVN   88 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTT-----TCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC-----CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            4789999999999999999999999999999999998742     45599999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        89 ~a~   91 (103)
T 2cq3_A           89 NAT   91 (103)
T ss_dssp             ECC
T ss_pred             Ecc
Confidence            653

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

Probab=99.79  E-value=6.5e-19  Score=130.54  Aligned_cols=82  Identities=20%  Similarity=0.310  Sum_probs=73.7

Q ss_pred             CCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       127 ~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      .++.+.++|||+|||+++++++|+++|++|| |.+|+|+.++.+   |+++|||||+|.+.++|++|+ .|||..|.+++
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~   84 (103)
T 2dng_A           10 LPTEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDT---DKFKGFCYVEFDEVDSLKEAL-TYDGALLGDRS   84 (103)
T ss_dssp             CCSSSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSS---CSEEEEEEEEESSHHHHHHHG-GGTTCEETTEE
T ss_pred             CCCCCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCC---CccceEEEEEECCHHHHHHHH-hhCCCeECCeE
Confidence            3445689999999999999999999999996 999999999743   678889999999999999999 89999999999


Q ss_pred             cccccCC
Q 028098          207 NQYQSGS  213 (214)
Q Consensus       207 ~~~~~~~  213 (214)
                      +++...+
T Consensus        85 l~V~~a~   91 (103)
T 2dng_A           85 LRVDIAE   91 (103)
T ss_dssp             CEEEECC
T ss_pred             EEEEEec
Confidence            9987653

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

Probab=99.79  E-value=6e-19  Score=132.63  Aligned_cols=80  Identities=16%  Similarity=0.230  Sum_probs=73.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeE--------EEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYK--------EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~--------~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      .+++|||+|||.++++++|+++|++||.|.        .|+|+.++..   |+++|||||+|.+.++|++|++.|||+.|
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~---g~~~g~afV~f~~~~~A~~Ai~~l~g~~~   90 (113)
T 2cpe_A           14 DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKET---GKPKGDATVSYEDPPTAKAAVEWFDGKDF   90 (113)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTT---CSBCSEEEEEBSSHHHHHHHHHHHTTCEE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCC---CCeeeEEEEEECCHHHHHHHHHHcCCCcc
Confidence            478999999999999999999999999999        6999998633   67778999999999999999999999999


Q ss_pred             cccccccccCC
Q 028098          203 VVAPNQYQSGS  213 (214)
Q Consensus       203 ~~~P~~~~~~~  213 (214)
                      .++++++...+
T Consensus        91 ~g~~l~V~~a~  101 (113)
T 2cpe_A           91 QGSKLKVSLAR  101 (113)
T ss_dssp             TTEECEEECSS
T ss_pred             CCCEEEEEECC
Confidence            99999987654

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

Probab=99.79  E-value=6.3e-19  Score=131.74  Aligned_cols=81  Identities=16%  Similarity=0.192  Sum_probs=73.9

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC------CCeec
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ------VQSKV  203 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln------G~~l~  203 (214)
                      .++++|||+|||+++++++|+++|++||.|..|+|+.++.+   |+++|||||+|.+.++|++|++.||      |..|.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~   89 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDT---EHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLD   89 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSS---CCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESS
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC---CCCccEEEEEECCHHHHHHHHHHhccccccCCcEEc
Confidence            34789999999999999999999999999999999998743   5677799999999999999999999      99999


Q ss_pred             ccccccccCC
Q 028098          204 VAPNQYQSGS  213 (214)
Q Consensus       204 ~~P~~~~~~~  213 (214)
                      ++++.+++..
T Consensus        90 g~~l~v~~a~   99 (111)
T 1x4h_A           90 GRQLKVDLAV   99 (111)
T ss_dssp             SCEEEEECCC
T ss_pred             CEEEEEEECC
Confidence            9999987654

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

Probab=99.79  E-value=1e-18  Score=131.37  Aligned_cols=78  Identities=17%  Similarity=0.179  Sum_probs=72.8

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|++|+|+.++.    |+++|||||+|.+.++|++|++.|||+.|.++++.++
T Consensus        14 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   89 (114)
T 2do0_A           14 LGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD----GKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVK   89 (114)
T ss_dssp             CCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT----CSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC----CCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEE
Confidence            478999999999999999999999999999999999874    6778899999999999999999999999999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus        90 ~a   91 (114)
T 2do0_A           90 MD   91 (114)
T ss_dssp             EC
T ss_pred             Ec
Confidence            54

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=5.8e-19  Score=130.64  Aligned_cols=79  Identities=19%  Similarity=0.317  Sum_probs=72.0

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ...++|||+|||+++++++|+++|++||.|.+|+|+.++.+     ++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   87 (103)
T 2cqi_A           13 GQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTS-----NDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKV   87 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCS-----SCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCC-----CCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEE
Confidence            34789999999999999999999999999999999998643     3459999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ++.+
T Consensus        88 ~~a~   91 (103)
T 2cqi_A           88 NWAT   91 (103)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            7754

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

Probab=99.78  E-value=4.3e-19  Score=130.27  Aligned_cols=80  Identities=21%  Similarity=0.272  Sum_probs=73.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|.+|+|+.++..   |+++|||||+|.+.++|++|++.|||..|.++++.+.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   83 (99)
T 1whw_A            7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLT---KKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVL   83 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTT---CCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCC---CCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            4789999999999999999999999999999999998732   5677799999999999999999999999999999887


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        84 ~a~   86 (99)
T 1whw_A           84 PST   86 (99)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            653

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A

Probab=99.78  E-value=6.3e-19  Score=137.17  Aligned_cols=81  Identities=17%  Similarity=0.137  Sum_probs=74.4

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +++++|||+|||.++++++|+++|++||.|++|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        44 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~t---g~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V  120 (129)
T 2kxn_B           44 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQS---RRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV  120 (129)
T ss_dssp             CCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSS---SCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC---CccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            35889999999999999999999999999999999998743   567779999999999999999999999999999999


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ++..
T Consensus       121 ~~a~  124 (129)
T 2kxn_B          121 DFSI  124 (129)
T ss_dssp             SCCS
T ss_pred             EEec
Confidence            8764

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

Probab=99.78  E-value=3.3e-19  Score=131.54  Aligned_cols=80  Identities=18%  Similarity=0.271  Sum_probs=73.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++++.
T Consensus        11 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~   87 (102)
T 2cqb_A           11 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYET---EKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN   87 (102)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSS---CCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCC---CCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            4789999999999999999999999999999999988633   5677799999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        88 ~a~   90 (102)
T 2cqb_A           88 LAK   90 (102)
T ss_dssp             ECC
T ss_pred             eCC
Confidence            654

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

Probab=99.78  E-value=1.6e-19  Score=134.03  Aligned_cols=78  Identities=13%  Similarity=0.135  Sum_probs=72.6

Q ss_pred             CCEEEEcCCCC------cCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc-
Q 028098          132 SSTLFVEGLPS------DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV-  204 (214)
Q Consensus       132 s~tLfVgnLp~------~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~-  204 (214)
                      +++|||+|||.      ++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||+.|.+ 
T Consensus         6 ~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~t---g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~   82 (100)
T 3ns6_A            6 DQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEAT---GKTKGFLFVECGSMNDAKKIIKSFHGKRLDLK   82 (100)
T ss_dssp             GGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTT---TEECSEEEEEESSHHHHHHHHHHHTTCBSSSS
T ss_pred             CcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCC---CccceEEEEEECCHHHHHHHHHHhCCcccCCC
Confidence            68999999999      9999999999999999999999999843   6778899999999999999999999999999 


Q ss_pred             cccccccC
Q 028098          205 APNQYQSG  212 (214)
Q Consensus       205 ~P~~~~~~  212 (214)
                      ++++++..
T Consensus        83 r~l~V~~a   90 (100)
T 3ns6_A           83 HRLFLYTM   90 (100)
T ss_dssp             CBCEEEES
T ss_pred             eEEEEEEC
Confidence            99988754

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

Probab=99.78  E-value=2.8e-19  Score=130.38  Aligned_cols=80  Identities=18%  Similarity=0.262  Sum_probs=73.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEE-EEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEV-RLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~v-rl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ++++|||+|||.++++++|+++|++||.|.+| +|+.++..   |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~---g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   80 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDT---GNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITV   80 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTT---CSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCC---CCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            37899999999999999999999999999999 99998632   667779999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      +...
T Consensus        81 ~~a~   84 (96)
T 1x5t_A           81 SYAF   84 (96)
T ss_dssp             EESC
T ss_pred             EEec
Confidence            7653

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C

Probab=99.78  E-value=1.7e-19  Score=131.02  Aligned_cols=77  Identities=13%  Similarity=0.147  Sum_probs=69.6

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCC--CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFV--GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG--~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+|||+|||+++++++|+++|++||  .|.+|+++.++.+   |+++|||||+|.+.++|++|++.|||..|.+++++++
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~---g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~   78 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRAN---GQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVT   78 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTT---CCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEEC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCC---CccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEE
Confidence            4899999999999999999999999  9999999999743   7888999999999999999999999999999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus        79 ~~   80 (90)
T 3p5t_L           79 PS   80 (90)
T ss_dssp             CC
T ss_pred             EC
Confidence            64

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

Probab=99.78  E-value=3.7e-19  Score=131.31  Aligned_cols=79  Identities=23%  Similarity=0.263  Sum_probs=72.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|.+|+|+.++..   |+++|||||+|.+.++|++|++.|||..|.++++++.
T Consensus        11 ~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   87 (102)
T 1x5s_A           11 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRET---QRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVD   87 (102)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSS---CSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCC---CCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            4789999999999999999999999999999999998733   5677799999999999999999999999999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus        88 ~a   89 (102)
T 1x5s_A           88 QA   89 (102)
T ss_dssp             EE
T ss_pred             EC
Confidence            54

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

Probab=99.78  E-value=9.3e-19  Score=129.56  Aligned_cols=80  Identities=18%  Similarity=0.205  Sum_probs=74.0

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcC-CCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCe-eccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRP-FVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQS-KVVAPN  207 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~-fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~-l~~~P~  207 (214)
                      .++++|||+|||+++++++|+++|++ ||.|.+|+|+.++.    |+++|||||+|.+.++|++|++.|||.. |.++++
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l   82 (104)
T 2dhg_A            7 GPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQT----GVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPV   82 (104)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTT----CCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCC----CCccceEEEEECCHHHHHHHHHHccCCcccCCEeE
Confidence            34789999999999999999999999 99999999999973    6788899999999999999999999999 999999


Q ss_pred             ccccCC
Q 028098          208 QYQSGS  213 (214)
Q Consensus       208 ~~~~~~  213 (214)
                      .+...+
T Consensus        83 ~v~~a~   88 (104)
T 2dhg_A           83 RLSVAI   88 (104)
T ss_dssp             CCCBCC
T ss_pred             EEEEcc
Confidence            988753

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=99.78  E-value=6.9e-19  Score=130.90  Aligned_cols=79  Identities=23%  Similarity=0.206  Sum_probs=73.6

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .++++|||+|||+++++++|+++|++||.|++|+|+.++.    |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        27 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V  102 (107)
T 3ulh_A           27 ETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRS----GRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNI  102 (107)
T ss_dssp             CCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTT----SCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC----CCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEE
Confidence            3478999999999999999999999999999999999973    677889999999999999999999999999999998


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      +..
T Consensus       103 ~~a  105 (107)
T 3ulh_A          103 QLV  105 (107)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            764

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

Probab=99.78  E-value=5e-19  Score=131.43  Aligned_cols=79  Identities=19%  Similarity=0.247  Sum_probs=73.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++.++
T Consensus        22 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   98 (106)
T 1p27_B           22 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRT---GYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD   98 (106)
T ss_dssp             TBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---SSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCC---CceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEE
Confidence            4789999999999999999999999999999999998743   6788899999999999999999999999999999987


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus        99 ~a  100 (106)
T 1p27_B           99 WC  100 (106)
T ss_dssp             ES
T ss_pred             ee
Confidence            65

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.78  E-value=1.1e-18  Score=129.55  Aligned_cols=83  Identities=20%  Similarity=0.260  Sum_probs=72.9

Q ss_pred             CCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       127 ~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      .|..+.++|||+|||+++++++|+++|++|| |.+|+|+.++.+  .|+++|||||+|.+.++|++|| .|||..|.+++
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~--~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~   85 (104)
T 1wi8_A           10 LPKSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSN--PERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKR   85 (104)
T ss_dssp             CCSSSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSC--TTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEE
T ss_pred             CCCCCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCC--CCCcCeEEEEEECCHHHHHHHH-hcCCCEeCCcE
Confidence            3444579999999999999999999999999 999999988732  1566779999999999999999 99999999999


Q ss_pred             cccccCC
Q 028098          207 NQYQSGS  213 (214)
Q Consensus       207 ~~~~~~~  213 (214)
                      ++++...
T Consensus        86 l~V~~a~   92 (104)
T 1wi8_A           86 IRVDVAD   92 (104)
T ss_dssp             CEEEECC
T ss_pred             EEEEEcc
Confidence            9987643

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.78  E-value=7.7e-19  Score=132.51  Aligned_cols=82  Identities=18%  Similarity=0.221  Sum_probs=73.9

Q ss_pred             CCEEEEcCCCCcCCHHHHH---HhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          132 SSTLFVEGLPSDCSRREVA---HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~---~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      .++|||+|||+++++++|+   ++|++||.|.+|+|+.++.....++++|||||+|.+.++|++|++.|||..|.+++++
T Consensus        15 ~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~   94 (111)
T 2cpi_A           15 KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLK   94 (111)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEEEE
Confidence            7899999999999999999   9999999999999998874322245678999999999999999999999999999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      ++++.
T Consensus        95 V~~a~   99 (111)
T 2cpi_A           95 ASLGT   99 (111)
T ss_dssp             EESCC
T ss_pred             EEecc
Confidence            98765

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

Probab=99.78  E-value=5e-19  Score=129.70  Aligned_cols=83  Identities=18%  Similarity=0.217  Sum_probs=73.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|.+|+|+.++.....|+++|||||+|.+.++|++|++.|||..|.+++++++
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   83 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVR   83 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            37899999999999999999999999999999999886411013778899999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        84 ~a~   86 (98)
T 2cpf_A           84 ISE   86 (98)
T ss_dssp             CSS
T ss_pred             Ecc
Confidence            654

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.77  E-value=1.3e-18  Score=131.01  Aligned_cols=81  Identities=19%  Similarity=0.261  Sum_probs=74.6

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .++++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        24 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V  100 (108)
T 2jrs_A           24 AGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSET---GRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKV  100 (108)
T ss_dssp             SSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTT---TEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCC---CccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            34789999999999999999999999999999999998643   678889999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ...+
T Consensus       101 ~~a~  104 (108)
T 2jrs_A          101 GHVT  104 (108)
T ss_dssp             ECSC
T ss_pred             EEcc
Confidence            7654

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

Probab=99.77  E-value=4.3e-19  Score=126.30  Aligned_cols=73  Identities=19%  Similarity=0.250  Sum_probs=66.5

Q ss_pred             CCEEEEcCCCCcC------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          132 SSTLFVEGLPSDC------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       132 s~tLfVgnLp~~~------te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      +++|||+|||.++      ++++|+++|++||.|.+|+|+...     |+++|||||+|.+.++|++|++.|||..|.++
T Consensus         1 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~-----g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~   75 (81)
T 2krb_A            1 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEED-----GKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ   75 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCBT-----TBCCCEEEEEESSHHHHHHHHTTSSSCCCSSS
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCCC-----CcEeEEEEEEECCHHHHHHHHHHhcCcccCCc
Confidence            4699999999999      789999999999999999988332     67778999999999999999999999999999


Q ss_pred             -cccc
Q 028098          206 -PNQY  209 (214)
Q Consensus       206 -P~~~  209 (214)
                       ++++
T Consensus        76 ~~l~V   80 (81)
T 2krb_A           76 HTFRV   80 (81)
T ss_dssp             SCCCC
T ss_pred             eeEEe
Confidence             8876

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D*

Probab=99.77  E-value=7.5e-19  Score=131.51  Aligned_cols=79  Identities=18%  Similarity=0.181  Sum_probs=73.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++.+.
T Consensus        25 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~  101 (110)
T 1oo0_B           25 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRT---GFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD  101 (110)
T ss_dssp             TBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTT---SSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCC---CCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEE
Confidence            4789999999999999999999999999999999988733   6777899999999999999999999999999999987


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus       102 ~a  103 (110)
T 1oo0_B          102 WC  103 (110)
T ss_dssp             ES
T ss_pred             Ec
Confidence            65

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

Probab=99.77  E-value=1.3e-18  Score=129.11  Aligned_cols=79  Identities=14%  Similarity=0.209  Sum_probs=72.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +.++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++. ||..|.++++.+.
T Consensus        15 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~   90 (105)
T 2dh8_A           15 EIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTT---NQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPK   90 (105)
T ss_dssp             SSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSS---CCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCC---CCcceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEE
Confidence            4789999999999999999999999999999999998643   67888999999999999999999 9999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ...
T Consensus        91 ~a~   93 (105)
T 2dh8_A           91 PCT   93 (105)
T ss_dssp             CSC
T ss_pred             Ecc
Confidence            653

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.77  E-value=6.7e-19  Score=129.02  Aligned_cols=80  Identities=19%  Similarity=0.169  Sum_probs=72.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++++++|+++|++||.|.+++++.++.+   |+++|||||+|.+.++|++|++.|||..|.++++.+.
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~---g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~   90 (98)
T 2cqp_A           14 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEK---GMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLV   90 (98)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSS---SCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCC---CCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            3689999999999999999999999999998888877633   6788899999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        91 ~a~   93 (98)
T 2cqp_A           91 LGS   93 (98)
T ss_dssp             ESS
T ss_pred             EcC
Confidence            653

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

Probab=99.77  E-value=1.2e-18  Score=132.90  Aligned_cols=80  Identities=20%  Similarity=0.311  Sum_probs=73.6

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +..++|||+|||.++++++|+++|++||.|++|+|+.+++    |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V   80 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRT----SKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKV   80 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTT----TTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCC----CCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            3478999999999999999999999999999999999873    667779999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+.+
T Consensus        81 ~~a~   84 (116)
T 2fy1_A           81 EQAK   84 (116)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            7654

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B

Probab=99.77  E-value=1.7e-18  Score=130.58  Aligned_cols=80  Identities=18%  Similarity=0.226  Sum_probs=72.1

Q ss_pred             CCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccc
Q 028098          128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPN  207 (214)
Q Consensus       128 p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~  207 (214)
                      |++++++|||+|||+++++++|+++|++||.|.+|+|+.+.      +++|||||+|.+.++|++|++.|||..+.++++
T Consensus         4 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~------~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l   77 (115)
T 3lqv_A            4 PPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP------ETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYL   77 (115)
T ss_dssp             CTTCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECST------TTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCC------CCCcEEEEEECCHHHHHHHHHHcCCCEECCeEE
Confidence            45568999999999999999999999999999999999763      345699999999999999999999999999999


Q ss_pred             ccccCC
Q 028098          208 QYQSGS  213 (214)
Q Consensus       208 ~~~~~~  213 (214)
                      .+.+.+
T Consensus        78 ~v~~a~   83 (115)
T 3lqv_A           78 VVLYYN   83 (115)
T ss_dssp             EEEECC
T ss_pred             EEEEec
Confidence            887653

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

Probab=99.77  E-value=1.4e-18  Score=132.07  Aligned_cols=74  Identities=18%  Similarity=0.226  Sum_probs=68.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC--Ceecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV--QSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG--~~l~~~P~~  208 (214)
                      ++++|||+|||+++|+++|+++|++||.|++|+|+.++     |    ||||+|.+.++|++|++.|++  ..|.+++++
T Consensus        15 ~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~k-----G----faFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~   85 (105)
T 1sjq_A           15 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGK-----N----QAFIEMNTEEAANTMVNYYTSVTPVLRGQPIY   85 (105)
T ss_dssp             CCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHTTSCCEETTEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCC-----C----EEEEEECCHHHHHHHHHHhccCCceECCEEEE
Confidence            47899999999999999999999999999999999874     4    999999999999999999874  789999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +++.+
T Consensus        86 V~~A~   90 (105)
T 1sjq_A           86 IQFSN   90 (105)
T ss_dssp             BCCCS
T ss_pred             EEEcC
Confidence            98765

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

Probab=99.76  E-value=2.3e-18  Score=130.18  Aligned_cols=78  Identities=18%  Similarity=0.210  Sum_probs=71.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++++++|+++|++||.|++|+|+.++.+   |+++|||||+|.+.++|++|++.||+ .|.++++.+.
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~   91 (116)
T 2cqd_A           16 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQT---GKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVN   91 (116)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSS---CCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCC---CccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEE
Confidence            4789999999999999999999999999999999998743   56777999999999999999999999 8999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus        92 ~a   93 (116)
T 2cqd_A           92 LA   93 (116)
T ss_dssp             ES
T ss_pred             Ec
Confidence            64

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.76  E-value=1.5e-18  Score=132.76  Aligned_cols=79  Identities=19%  Similarity=0.247  Sum_probs=73.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++.++
T Consensus        21 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   97 (126)
T 3ex7_B           21 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRT---GYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD   97 (126)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTT---SSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC---CccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            4789999999999999999999999999999999988733   6777899999999999999999999999999999987


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus        98 ~a   99 (126)
T 3ex7_B           98 WC   99 (126)
T ss_dssp             ES
T ss_pred             Ee
Confidence            64

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.76  E-value=7.3e-19  Score=127.93  Aligned_cols=79  Identities=18%  Similarity=0.155  Sum_probs=72.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||+++++++|+++|++||.|.+++++.++.+   |+++|||||+|.++++|++|++.|||..|.++++++..
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~---g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~   91 (95)
T 2ek1_A           15 PTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEK---GMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSG   91 (95)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTT---SCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCC---CCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEe
Confidence            689999999999999999999999999998888887633   67888999999999999999999999999999999876


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        92 a~   93 (95)
T 2ek1_A           92 PS   93 (95)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=4.9e-18  Score=127.50  Aligned_cols=74  Identities=18%  Similarity=0.253  Sum_probs=67.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh--CCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL--QVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L--nG~~l~~~P~~  208 (214)
                      ++++|||+|||+++++++|+++|++||.|++|+|+.++     |    ||||+|.+.++|++|++.|  ++..|.++++.
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~k-----g----~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~   84 (101)
T 2cq1_A           14 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGK-----N----QAFLELATEEAAITMVNYYSAVTPHLRNQPIY   84 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHHHSCCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECCC-----C----EEEEEECCHHHHHHHHHHhccCCceECCcEEE
Confidence            48899999999999999999999999999999998763     4    9999999999999999987  57889999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +++.+
T Consensus        85 V~~a~   89 (101)
T 2cq1_A           85 IQYSN   89 (101)
T ss_dssp             EEECS
T ss_pred             EEEcC
Confidence            88764

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

Probab=99.76  E-value=9.7e-19  Score=131.39  Aligned_cols=75  Identities=12%  Similarity=0.073  Sum_probs=70.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++|+++|+++|++||.|.+|+|+.++.    |+++|||||+|.+.++|++|++ +||..|.++++.+++
T Consensus        11 ~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~----g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~~   85 (103)
T 1s79_A           11 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH----KAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILF   85 (103)
T ss_dssp             GGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCT----TSCCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCC----CCCccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEE
Confidence            68999999999999999999999999999999999874    5667799999999999999998 999999999998875

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.76  E-value=1.1e-18  Score=129.23  Aligned_cols=80  Identities=18%  Similarity=0.217  Sum_probs=70.2

Q ss_pred             CCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccc
Q 028098          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPN  207 (214)
Q Consensus       129 ~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k-~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~  207 (214)
                      ....++|||+|||+++++++|+++|++|| |.+|+|+.++ ..   |+++|||||+|.+.++|++|+ .|||..|.++++
T Consensus        16 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~---g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l   90 (100)
T 2j76_E           16 KSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNP---ERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRI   90 (100)
T ss_dssp             ----CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTT---CCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcC---CccCeEEEEEECCHHHHHHHH-hcCCCEECCeEE
Confidence            34589999999999999999999999999 9999999886 22   677789999999999999999 999999999999


Q ss_pred             ccccCC
Q 028098          208 QYQSGS  213 (214)
Q Consensus       208 ~~~~~~  213 (214)
                      .+...+
T Consensus        91 ~V~~a~   96 (100)
T 2j76_E           91 RVDVAD   96 (100)
T ss_dssp             CCEECC
T ss_pred             EEEecc
Confidence            987654

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=4.9e-19  Score=130.88  Aligned_cols=80  Identities=19%  Similarity=0.284  Sum_probs=73.8

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||.++++++|+++|++||.|.+|+++.++..   |+++|||||+|.+.++|++|++.|||..|.++++++.
T Consensus         7 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~---g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   83 (104)
T 1p1t_A            7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRET---GKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVD   83 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTT---TEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEE
T ss_pred             CccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCC---CccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEE
Confidence            4689999999999999999999999999999999998743   6788899999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +..
T Consensus        84 ~a~   86 (104)
T 1p1t_A           84 NAA   86 (104)
T ss_dssp             ETT
T ss_pred             eCC
Confidence            654

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

Probab=99.76  E-value=1.6e-18  Score=139.34  Aligned_cols=79  Identities=9%  Similarity=0.100  Sum_probs=72.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCC--CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFV--GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG--~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ..++|||+|||+++++++|+++|++||  .|.+|+|+.++.+   |+++|||||+|.+.++|++||+.|||..|.++++.
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~t---g~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~  130 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRAN---GQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVD  130 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTT---CCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCC---CccceEEEEEECCHHHHHHHHHHcCCCEECCeEeE
Confidence            368999999999999999999999999  9999999999743   78889999999999999999999999999999999


Q ss_pred             cccC
Q 028098          209 YQSG  212 (214)
Q Consensus       209 ~~~~  212 (214)
                      ++..
T Consensus       131 V~~a  134 (156)
T 3n9u_C          131 VRPA  134 (156)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            8765

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

Probab=99.76  E-value=1.3e-18  Score=135.24  Aligned_cols=81  Identities=17%  Similarity=0.235  Sum_probs=74.4

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +..++|||+|||.++++++|+++|++||.|++|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        40 ~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v  116 (139)
T 1u6f_A           40 DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRET---RQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKV  116 (139)
T ss_dssp             TTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTT---TEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCC---CCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            45799999999999999999999999999999999998743   678889999999999999999999999999999988


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ...+
T Consensus       117 ~~a~  120 (139)
T 1u6f_A          117 ALAA  120 (139)
T ss_dssp             EESS
T ss_pred             EECC
Confidence            7653

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

Probab=99.76  E-value=1.8e-18  Score=124.16  Aligned_cols=78  Identities=13%  Similarity=0.206  Sum_probs=72.0

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||.++++++|+++|++||.|.+|+++.++.+   |+++|||||+|.+.++|++|+ .|||..+.+++++++.
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~   81 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFS---GHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIP   81 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSS---SSCCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCC---CCcceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEE
Confidence            579999999999999999999999999999999998633   667789999999999999999 9999999999999887


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        82 a~   83 (89)
T 3ucg_A           82 KR   83 (89)
T ss_dssp             TT
T ss_pred             cc
Confidence            54

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

Probab=99.76  E-value=1.9e-18  Score=130.08  Aligned_cols=78  Identities=18%  Similarity=0.227  Sum_probs=72.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||.++++++|+++|++||.|.+|+|+.++.     +++|||||+|.+.++|++|++.|||..|.++++++.
T Consensus        28 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~-----~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~  102 (109)
T 2err_A           28 QPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER-----GSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVN  102 (109)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTT-----BCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCC-----CCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            478999999999999999999999999999999999863     356699999999999999999999999999999988


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus       103 ~a~  105 (109)
T 2err_A          103 NAT  105 (109)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            764

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X

Probab=99.76  E-value=2.5e-18  Score=136.51  Aligned_cols=80  Identities=19%  Similarity=0.197  Sum_probs=74.1

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .++++|||+|||.++++++|+++|++||.|++|+|+.++.+   |+++|||||+|.+.++|++||+.|||..|.++++++
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V  113 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK---KTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRT  113 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC---CccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            35789999999999999999999999999999999999743   677889999999999999999999999999999998


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      .+.
T Consensus       114 ~~a  116 (156)
T 1h2v_Z          114 DWD  116 (156)
T ss_dssp             EEE
T ss_pred             EEC
Confidence            764

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

Probab=99.76  E-value=2.2e-18  Score=123.59  Aligned_cols=77  Identities=17%  Similarity=0.232  Sum_probs=69.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +.++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++ +++..|.++++.++
T Consensus        10 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~v~   85 (87)
T 3s7r_A           10 DAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNT---GRSRGFGFILFKDAASVEKVLD-QKEHRLDGRVIDPK   85 (87)
T ss_dssp             CTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTT---CCEEEEEEEEESSTHHHHHHHH-SSCEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCC---CccccEEEEEECCHHHHHHHHH-hCCCEECCEEEEEE
Confidence            4789999999999999999999999999999999998743   6788899999999999999995 58888999988876


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      .
T Consensus        86 ~   86 (87)
T 3s7r_A           86 K   86 (87)
T ss_dssp             E
T ss_pred             e
Confidence            4

>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.76  E-value=1.4e-18  Score=131.08  Aligned_cols=75  Identities=12%  Similarity=0.205  Sum_probs=68.0

Q ss_pred             CCCCEEEEcCCCC-cCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC--eecccc
Q 028098          130 DASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ--SKVVAP  206 (214)
Q Consensus       130 ~~s~tLfVgnLp~-~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~--~l~~~P  206 (214)
                      +++++|||+|||+ ++++++|+++|++||.|.+|+|+.++     |    ||||+|++.++|++|++.||+.  .|.+++
T Consensus        13 ~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~k-----g----~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~   83 (102)
T 1x4d_A           13 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI-----N----EAFIEMATTEDAQAAVDYYTTTPALVFGKP   83 (102)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS-----S----CEEEEESSHHHHHHHHHHHHHSCCEETTEE
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcCC-----C----EEEEEECCHHHHHHHHHHHcCCCceECCcE
Confidence            3588999999999 99999999999999999999998775     4    9999999999999999999875  599999


Q ss_pred             cccccCC
Q 028098          207 NQYQSGS  213 (214)
Q Consensus       207 ~~~~~~~  213 (214)
                      +.++..+
T Consensus        84 l~V~~a~   90 (102)
T 1x4d_A           84 VRVHLSQ   90 (102)
T ss_dssp             CEEEEEC
T ss_pred             EEEEECC
Confidence            9987654

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}

Probab=99.76  E-value=1.4e-18  Score=124.41  Aligned_cols=79  Identities=11%  Similarity=0.158  Sum_probs=71.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||.++++++|+++|++||.|.+|+|+.++.+  +++++|||||+|.+.++|++|++.|||..+.++++.++.
T Consensus         4 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~--~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   81 (88)
T 4a8x_A            4 PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMH--PHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATA   81 (88)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTE--EEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCC--CCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEE
Confidence            679999999999999999999999999999999998732  123667999999999999999999999999999998875


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        82 a   82 (88)
T 4a8x_A           82 V   82 (88)
T ss_dssp             E
T ss_pred             C
Confidence            4

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

Probab=99.75  E-value=3.4e-18  Score=132.23  Aligned_cols=78  Identities=18%  Similarity=0.276  Sum_probs=71.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +.++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.+++++++
T Consensus        62 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  138 (140)
T 2ku7_A           62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYET---EKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN  138 (140)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTT---CCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEE
T ss_pred             CCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCC---CCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            3789999999999999999999999999999999998633   5677799999999999999999999999999999886


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      .
T Consensus       139 ~  139 (140)
T 2ku7_A          139 L  139 (140)
T ss_dssp             C
T ss_pred             e
Confidence            5

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=1.8e-17  Score=124.71  Aligned_cols=75  Identities=16%  Similarity=0.318  Sum_probs=67.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..++|||+|||.++++++|+++|++||.|.+|+|+.++.    |+++|||||+|.+.++|++|++.|||..|.+.++..
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~   98 (114)
T 1x5o_A           24 DPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSS----GTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVS   98 (114)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSS----SCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCC----CCcceEEEEEECCHHHHHHHHHHhCCCEEcCCcccc
Confidence            478999999999999999999999999999999999973    677889999999999999999999999996544333

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

Probab=99.75  E-value=1.4e-18  Score=134.72  Aligned_cols=79  Identities=14%  Similarity=0.188  Sum_probs=72.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEE--EEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC----eecc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKE--VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ----SKVV  204 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~--vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~----~l~~  204 (214)
                      .+++|||+|||+++|+++|+++|++||.|..  |+|+.++.+   |++||||||+|.+. +|++|++.|||.    .|.+
T Consensus        22 ~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~t---g~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~g   97 (131)
T 2m2b_A           22 ANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQT---QLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDG   97 (131)
T ss_dssp             CCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSS---SSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGG
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCC---CCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCC
Confidence            4789999999999999999999999999977  999999843   67788999999999 999999999999    9999


Q ss_pred             cccccccCC
Q 028098          205 APNQYQSGS  213 (214)
Q Consensus       205 ~P~~~~~~~  213 (214)
                      ++++++..+
T Consensus        98 r~l~V~~a~  106 (131)
T 2m2b_A           98 KTINVEFAK  106 (131)
T ss_dssp             CCCCCEECC
T ss_pred             EEEEEEECC
Confidence            999987653

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=3.6e-18  Score=127.41  Aligned_cols=76  Identities=20%  Similarity=0.221  Sum_probs=68.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEE-EEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~-vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..++|||+|||+++++++|+++|++||.|.+ |+|+.++.    |+++|||||+|.++++|++||+. ||..|.++++.+
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~----g~~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v   88 (104)
T 1wg5_A           14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQ----GRSTGEAFVQFASQEIAEKALKK-HKERIGHRYIEI   88 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSS----SCBCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCC----CCcceEEEEEECCHHHHHHHHHh-CcchhCCcEEEE
Confidence            4789999999999999999999999999987 88888753    66777999999999999999998 999999999887


Q ss_pred             cc
Q 028098          210 QS  211 (214)
Q Consensus       210 ~~  211 (214)
                      ..
T Consensus        89 ~~   90 (104)
T 1wg5_A           89 FK   90 (104)
T ss_dssp             EE
T ss_pred             EE
Confidence            54

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

Probab=99.75  E-value=1.6e-18  Score=129.54  Aligned_cols=78  Identities=18%  Similarity=0.200  Sum_probs=70.2

Q ss_pred             CCCEEEEcCCCCcC------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc
Q 028098          131 ASSTLFVEGLPSDC------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV  204 (214)
Q Consensus       131 ~s~tLfVgnLp~~~------te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~  204 (214)
                      .+++|||+|||+++      ++++|+++|++||.|.+|+|+.. +    |+++|||||+|.+.++|++|++.|||..|.+
T Consensus        14 ~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~-~----g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g   88 (105)
T 2nlw_A           14 IDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEE-D----GKTKGYIFLEYASPAHAVDAVKNADGYKLDK   88 (105)
T ss_dssp             CCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCB-T----TBSCCEEEEEECSSSHHHHHHHHCSSEECST
T ss_pred             CCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCC-C----CCeeeEEEEEECCHHHHHHHHHHhCCcccCC
Confidence            47899999999999      78999999999999999999832 2    6777899999999999999999999999999


Q ss_pred             c-ccccccCC
Q 028098          205 A-PNQYQSGS  213 (214)
Q Consensus       205 ~-P~~~~~~~  213 (214)
                      + ++++++..
T Consensus        89 ~~~l~V~~a~   98 (105)
T 2nlw_A           89 QHTFRVNLFT   98 (105)
T ss_dssp             TCEEEEECSC
T ss_pred             CceEEEEEcc
Confidence            8 99887653

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

Probab=99.75  E-value=2.7e-18  Score=133.96  Aligned_cols=77  Identities=9%  Similarity=0.095  Sum_probs=69.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHH----HhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          131 ASSTLFVEGLPSDCSRREVA----HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~----~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      ++++|||+|||+++++++|+    ++|++||.|.+|.+..+      |+++|||||+|.+.++|+.|++.|||..|.+++
T Consensus        28 p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~~------~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~  101 (127)
T 2a3j_A           28 PSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLS------DDNSGKAYIVFATQESAQAFVEAFQGYPFQGNP  101 (127)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECCC------CSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEeccC------CCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCE
Confidence            47899999999999999876    69999999999988543      456679999999999999999999999999999


Q ss_pred             cccccCC
Q 028098          207 NQYQSGS  213 (214)
Q Consensus       207 ~~~~~~~  213 (214)
                      +++++.+
T Consensus       102 l~V~~a~  108 (127)
T 2a3j_A          102 LVITFSE  108 (127)
T ss_dssp             CEEEECC
T ss_pred             EEEEEcc
Confidence            9998765

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=2.6e-18  Score=128.50  Aligned_cols=75  Identities=17%  Similarity=0.192  Sum_probs=68.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++|+++|+++|++|| +++|+|+.+++    |++||||||+|.+.++|++|| .+|+..|.++++.+.
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~G-~~~v~i~~d~~----g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~   87 (102)
T 1wez_A           14 TGHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPD----GRVTGEADVEFATHEDAVAAM-AKDKANMQHRYVELF   87 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCSCC-CSEEEEEESSS----SCEEEEEEEECSSSHHHHHHH-TTSSCCSSSSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcC-ceEEEEEECCC----CCEeeEEEEEECCHHHHHHHH-HhCCCeECCcEEEEE
Confidence            368999999999999999999999999 55999999973    788889999999999999999 579999999998875


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      .
T Consensus        88 ~   88 (102)
T 1wez_A           88 L   88 (102)
T ss_dssp             E
T ss_pred             E
Confidence            4

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

Probab=99.75  E-value=1.3e-18  Score=121.49  Aligned_cols=75  Identities=17%  Similarity=0.258  Sum_probs=68.8

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccC
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSG  212 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~  212 (214)
                      +|||+|||+++++++|+++|++||.|.+|+++.++.+   |+++|||||+|.+.++|++|++ |||..|.++++.+++.
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTT---NRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSS---TTSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCC---CCcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEeC
Confidence            5999999999999999999999999999999988732   6777899999999999999998 9999999999988753

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

Probab=99.75  E-value=2.7e-18  Score=129.36  Aligned_cols=74  Identities=16%  Similarity=0.194  Sum_probs=67.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCe--ecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQS--KVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~--l~~~P~~  208 (214)
                      ++++|||+|||+++|+++|+++|++||.|.+|+++..+     |    ||||+|++.++|++|++.|||..  |.++|+.
T Consensus        20 ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~~k-----g----~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~   90 (100)
T 3r27_A           20 ASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKK-----R----QALVEFEDVLGACNAVNYAADNQIYIAGHPAF   90 (100)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHHHSCEEETTEEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEcCC-----C----EEEEEECCHHHHHHHHHHhcCCCceeCCcEEE
Confidence            48999999999999999999999999999999998653     4    99999999999999999999986  7799999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      ++..+
T Consensus        91 V~~S~   95 (100)
T 3r27_A           91 VNYST   95 (100)
T ss_dssp             EEECS
T ss_pred             EEecc
Confidence            88654

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=1.6e-18  Score=132.95  Aligned_cols=80  Identities=19%  Similarity=0.232  Sum_probs=70.1

Q ss_pred             CCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccc
Q 028098          128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPN  207 (214)
Q Consensus       128 p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~  207 (214)
                      +....++|||+|||+++++++|+++|++||.|.++.++.++.+   |+++|||||+|.+.++|++||+ |||..|.++++
T Consensus        21 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~---g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i   96 (124)
T 1wel_A           21 PHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPN---GKATGEGFVEFRNEADYKAALC-RHKQYMGNRFI   96 (124)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTT---SSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCB
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCC---CCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEE
Confidence            3445789999999999999999999999999988655555422   7788899999999999999999 99999999999


Q ss_pred             cccc
Q 028098          208 QYQS  211 (214)
Q Consensus       208 ~~~~  211 (214)
                      .+..
T Consensus        97 ~V~~  100 (124)
T 1wel_A           97 QVHP  100 (124)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            8865

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

Probab=99.75  E-value=2.3e-18  Score=131.69  Aligned_cols=77  Identities=17%  Similarity=0.166  Sum_probs=70.8

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCC---eEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVG---YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~---i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      ...++|||+|||+++|+++|+++|++||.   |..|+|+.++.    |+++|||||+|.+.++|++||+ |||..|.+++
T Consensus        15 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~----g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~   89 (118)
T 2db1_A           15 GEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTRE----GRQSGEAFVELESEDDVKLALK-KDRESMGHRY   89 (118)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSS----SCEEEEEEEEBSSHHHHHHHGG-GTTEEETTEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCC----CCCCeEEEEEECCHHHHHHHHh-cCCCeECCeE
Confidence            34789999999999999999999999999   89999999874    6778899999999999999999 9999999999


Q ss_pred             ccccc
Q 028098          207 NQYQS  211 (214)
Q Consensus       207 ~~~~~  211 (214)
                      +.+..
T Consensus        90 i~V~~   94 (118)
T 2db1_A           90 IEVFK   94 (118)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            88754

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

Probab=99.74  E-value=2.6e-18  Score=129.46  Aligned_cols=77  Identities=19%  Similarity=0.297  Sum_probs=70.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|+ .|||+.|.++++.++
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~   99 (114)
T 2cq4_A           24 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNS---RRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQ   99 (114)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCS---SSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCC---CccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEE
Confidence            3589999999999999999999999999999999998743   566779999999999999999 999999999999886


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      +
T Consensus       100 ~  100 (114)
T 2cq4_A          100 A  100 (114)
T ss_dssp             E
T ss_pred             e
Confidence            5

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

Probab=99.74  E-value=5.1e-18  Score=122.86  Aligned_cols=76  Identities=17%  Similarity=0.235  Sum_probs=70.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++++++|+++|++| .|.+|+|+.+..    |+++|||||+|.+.++|++|++ |||..|.++++.+.
T Consensus         9 ~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~----g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~   82 (91)
T 2dgw_A            9 TCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAH----GNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVF   82 (91)
T ss_dssp             CCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTT----SCEEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEE
T ss_pred             CccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCC----CCCceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEE
Confidence            47899999999999999999999999 999999999843    6788899999999999999999 99999999999886


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus        83 ~a   84 (91)
T 2dgw_A           83 RE   84 (91)
T ss_dssp             EE
T ss_pred             EC
Confidence            54

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

Probab=99.74  E-value=1.6e-17  Score=127.08  Aligned_cols=79  Identities=23%  Similarity=0.209  Sum_probs=72.8

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +.+++|||+|||.++++++|+++|++||.|++|+|+.++.    |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        33 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~----g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V  108 (124)
T 2kt5_A           33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRS----GRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDI  108 (124)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSS----SSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCC----CCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEE
Confidence            4588999999999999999999999999999999999873    566779999999999999999999999999999988


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      +..
T Consensus       109 ~~a  111 (124)
T 2kt5_A          109 QLV  111 (124)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            754

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

Probab=99.74  E-value=1e-17  Score=119.46  Aligned_cols=74  Identities=18%  Similarity=0.263  Sum_probs=69.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh-CCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL-QVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L-nG~~l~~~P~~~  209 (214)
                      .+++|||+|||.++++++|+++|++||.|.+|+++.++     |    ||||+|.+.++|++|++.| ||..+.++++++
T Consensus        11 ~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~k-----g----~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v   81 (85)
T 2ytc_A           11 TITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQ-----Q----CAFIQFATRQAAEVAAEKSFNKLIVNGRRLNV   81 (85)
T ss_dssp             SCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGGG-----T----EEEEEESSHHHHHHHHHTTTTTCEETTEECCE
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECCC-----C----EEEEEECCHHHHHHHHHHhcCCeeECCCEEEE
Confidence            47899999999999999999999999999999999764     4    9999999999999999999 999999999999


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ++++
T Consensus        82 ~~ak   85 (85)
T 2ytc_A           82 KWGR   85 (85)
T ss_dssp             EECC
T ss_pred             EecC
Confidence            8764

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=5.9e-18  Score=124.36  Aligned_cols=77  Identities=16%  Similarity=0.115  Sum_probs=70.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHH----HhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          131 ASSTLFVEGLPSDCSRREVA----HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~----~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      ..++|||+|||+++++++|+    ++|++||.|.+|+|+.++.+      +|||||+|.+.++|++|++.|||..|.+++
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~------rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~   81 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDY------QLKAVVQMENLQDAIGAVNSLHRYKIGSKK   81 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCST------TCCEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCC------CeEEEEEECCHHHHHHHHHHhCCCEECCeE
Confidence            47899999999999999999    99999999999999998743      349999999999999999999999999999


Q ss_pred             cccccCC
Q 028098          207 NQYQSGS  213 (214)
Q Consensus       207 ~~~~~~~  213 (214)
                      ++++..+
T Consensus        82 l~V~~a~   88 (96)
T 2dgx_A           82 ILVSLAT   88 (96)
T ss_dssp             EEEEECC
T ss_pred             EEEEEcC
Confidence            9987654

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.73  E-value=1.2e-17  Score=125.89  Aligned_cols=74  Identities=12%  Similarity=0.102  Sum_probs=66.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC--eecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ--SKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~--~l~~~P~~  208 (214)
                      ++++|||+|||+++++++|+++|++||.|.+|+|+.++     |    ||||+|.+.++|++|++.||+.  .|.+++++
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~k-----g----~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~   84 (104)
T 1wex_A           14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFK-----R----QALVEFENIDSAKECVTFAADVPVYIAGQQAF   84 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHHHSCCBSSSSBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECCC-----C----EEEEEECCHHHHHHHHHHhccCCceECCEEEE
Confidence            37899999999999999999999999999999998753     4    9999999999999999998765  48999998


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      ++..+
T Consensus        85 V~~a~   89 (104)
T 1wex_A           85 FNYST   89 (104)
T ss_dssp             EEECS
T ss_pred             EEEcc
Confidence            87654

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

Probab=99.73  E-value=1.5e-17  Score=122.94  Aligned_cols=77  Identities=19%  Similarity=0.179  Sum_probs=68.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +.++|||+|||+++++++|+++|++||.|+.|+|+.++.+   |+++|||||+|.+.++|++|++  ++..|.++++.++
T Consensus        14 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~A~~--~~~~~~g~~l~v~   88 (103)
T 2cqg_A           14 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKT---GHSKGFGFVRFTEYETQVKVMS--QRHMIDGRWCDCK   88 (103)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSS---CSEEEEEEEEESSHHHHHHHHH--SCEEETTEEEEEE
T ss_pred             CCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCC---CCccceEEEEECCHHHHHHHHH--cCCeeCCeEEEEE
Confidence            4789999999999999999999999999999999998743   6788899999999999999998  4677888887776


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus        89 ~a   90 (103)
T 2cqg_A           89 LP   90 (103)
T ss_dssp             CC
T ss_pred             ec
Confidence            54

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

Probab=99.73  E-value=1.7e-18  Score=135.56  Aligned_cols=80  Identities=19%  Similarity=0.183  Sum_probs=73.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|+.|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.+++++++
T Consensus        46 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~---g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~  122 (135)
T 2lea_A           46 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYT---KESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQ  122 (135)
T ss_dssp             GCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSS---SSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCC---CccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            4789999999999999999999999999999999988732   6677799999999999999999999999999999988


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus       123 ~a~  125 (135)
T 2lea_A          123 MAR  125 (135)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            654

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=3.3e-18  Score=129.56  Aligned_cols=78  Identities=12%  Similarity=0.108  Sum_probs=70.7

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCe-EEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGY-KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i-~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      .+.++|||+|||+++++++|+++|++||.| ..|+|+.+++    |+++|||||+|.+.++|++||+. ||..|.++++.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~----g~~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~   87 (114)
T 2cpy_A           13 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNN----GQGLGQALVQFKNEDDARKSERL-HRKKLNGREAF   87 (114)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTT----SSCSSCEEEECSSHHHHHHHGGG-CSEEETTEEEE
T ss_pred             CCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCC----CCcceEEEEEECCHHHHHHHHHh-CCCccCCeEEE
Confidence            347899999999999999999999999999 8899999873    66777999999999999999987 99999999998


Q ss_pred             cccC
Q 028098          209 YQSG  212 (214)
Q Consensus       209 ~~~~  212 (214)
                      +...
T Consensus        88 v~~a   91 (114)
T 2cpy_A           88 VHVV   91 (114)
T ss_dssp             EEEE
T ss_pred             EEEC
Confidence            8653

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.73  E-value=1.3e-17  Score=124.99  Aligned_cols=73  Identities=18%  Similarity=0.176  Sum_probs=67.7

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc-----
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV-----  204 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~-----  204 (214)
                      ...++|||+|||+++++++|+++|++||.|++|+|+.+      |    ||||+|.+.++|++||+.|||+.|.+     
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~------g----~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~   82 (108)
T 1x4c_A           13 RSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD------G----TGVVEFVRKEDMTYAVRKLDNTKFRSHEGET   82 (108)
T ss_dssp             SCCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT------T----EEEEEESSHHHHHHHHHHSSSEEEECTTSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC------C----EEEEEECCHHHHHHHHHHHCcCCccCCcCcc
Confidence            34789999999999999999999999999999999887      3    99999999999999999999999999     


Q ss_pred             cccccccC
Q 028098          205 APNQYQSG  212 (214)
Q Consensus       205 ~P~~~~~~  212 (214)
                      ++++++..
T Consensus        83 ~~i~V~~a   90 (108)
T 1x4c_A           83 AYIRVKVD   90 (108)
T ss_dssp             EEEEEEES
T ss_pred             eEEEEEeC
Confidence            88887654

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.73  E-value=2.1e-17  Score=121.12  Aligned_cols=74  Identities=16%  Similarity=0.211  Sum_probs=68.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec--ccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV--VAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~--~~P~~  208 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+++.++     |    ||||+|.+.++|++|++.|||..|.  +++++
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~~-----g----~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~   86 (97)
T 1why_A           16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGD-----S----FAYIQYESLDAAQAACAKMRGFPLGGPDRRLR   86 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSS-----C----CEEEEESSHHHHHHHHHHHTTCBCSSSSCBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCCC-----C----EEEEEECCHHHHHHHHHHHCCCEeCCCCcEEE
Confidence            37899999999999999999999999999999998763     4    9999999999999999999999999  99999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +++.+
T Consensus        87 V~~a~   91 (97)
T 1why_A           87 VDFAK   91 (97)
T ss_dssp             EEECC
T ss_pred             EEECC
Confidence            87754

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

Probab=99.73  E-value=8.1e-18  Score=139.66  Aligned_cols=81  Identities=20%  Similarity=0.263  Sum_probs=72.5

Q ss_pred             CCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       129 ~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ..+++||||+|||+++|+++|+++|++||.|++|+|+.++.+   |+++|||||+|.+.++|++|++.|||..+.+++++
T Consensus        12 ~~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~t---g~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~   88 (213)
T 4f02_A           12 SYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMIT---RRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVR   88 (213)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCC---CCccccccceeCCHHHHHHHHHHhhhhhcCCcccc
Confidence            345789999999999999999999999999999999998743   67888999999999999999999999999999988


Q ss_pred             cccC
Q 028098          209 YQSG  212 (214)
Q Consensus       209 ~~~~  212 (214)
                      +.+.
T Consensus        89 ~~~~   92 (213)
T 4f02_A           89 IMWS   92 (213)
T ss_dssp             EEEC
T ss_pred             cccc
Confidence            7653

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.73  E-value=1.5e-17  Score=122.65  Aligned_cols=78  Identities=27%  Similarity=0.334  Sum_probs=69.1

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .++++|||+|||.++++++|+++|++|+   +|+++.++..   |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~---~~~~~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V   86 (102)
T 2fc8_A           13 QPSKTLFVKGLSEDTTEETLKESFDGSV---RARIVTDRET---GSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTL   86 (102)
T ss_dssp             CCCSSEEEECCCTTCCHHHHHHTSTTCS---EEEEEECSSS---CSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCEEEEeCCCCccCHHHHHHHhcCCe---EEEEEecCCC---CCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence            3589999999999999999999999874   6778877633   678889999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+.+
T Consensus        87 ~~a~   90 (102)
T 2fc8_A           87 DWAK   90 (102)
T ss_dssp             EECC
T ss_pred             EEec
Confidence            7654

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

Probab=99.73  E-value=9.7e-18  Score=134.68  Aligned_cols=79  Identities=18%  Similarity=0.181  Sum_probs=73.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+.+|++||.|..|+|+.++.+   |+++|||||+|.+.++|++||+.|||..|.++++.+.
T Consensus        71 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~  147 (165)
T 1rk8_A           71 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRT---GFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD  147 (165)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---SSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCC---CcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            4789999999999999999999999999999999998743   6788899999999999999999999999999999987


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus       148 ~a  149 (165)
T 1rk8_A          148 WC  149 (165)
T ss_dssp             ES
T ss_pred             Ee
Confidence            64

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.73  E-value=3.2e-18  Score=124.97  Aligned_cols=77  Identities=18%  Similarity=0.200  Sum_probs=70.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHH----HhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          131 ASSTLFVEGLPSDCSRREVA----HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~----~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      ++++|||+|||.++++++|+    ++|++||.|.+|+++..      |+++|||||+|.+.++|++|++.|||..+.+++
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~------~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   80 (97)
T 1nu4_A            7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS------LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKP   80 (97)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH------HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcC------CCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcE
Confidence            47899999999999999999    99999999999998743      455669999999999999999999999999999


Q ss_pred             cccccCC
Q 028098          207 NQYQSGS  213 (214)
Q Consensus       207 ~~~~~~~  213 (214)
                      +++++.+
T Consensus        81 l~v~~a~   87 (97)
T 1nu4_A           81 MRIQYAK   87 (97)
T ss_dssp             CEEEECS
T ss_pred             EEEEEcc
Confidence            9988764

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

Probab=99.73  E-value=1.2e-17  Score=123.04  Aligned_cols=76  Identities=14%  Similarity=0.207  Sum_probs=67.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|   +++.+..    |+++|||||+|.+.++|++|++.|||..|.++++++.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~~~----g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   86 (101)
T 2fc9_A           14 ESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQN----GKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLE   86 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBCSS----SCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEECCC----CCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEE
Confidence            47899999999999999999999999976   5666543    5667799999999999999999999999999999887


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        87 ~a~   89 (101)
T 2fc9_A           87 LQG   89 (101)
T ss_dssp             ECS
T ss_pred             EcC
Confidence            653

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

Probab=99.73  E-value=2.3e-18  Score=120.53  Aligned_cols=76  Identities=14%  Similarity=0.188  Sum_probs=69.3

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccC
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSG  212 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~  212 (214)
                      ++|||+|||.++++++|+++|++||.|.+|+++.++.+   |+++|||||+|.+.++|++|++.++ ..+.++++.+++.
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLT---KRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCS---SSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCC---CCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEec
Confidence            48999999999999999999999999999999998733   5677799999999999999999999 9999999987653

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.73  E-value=1.7e-17  Score=121.98  Aligned_cols=74  Identities=22%  Similarity=0.266  Sum_probs=68.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|++|+++.++     |    ||||+|.+.++|++|++.|||..|.++++++.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~k-----g----~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~   84 (99)
T 2cpj_A           14 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK-----G----FGFIRLETRTLAEIAKVELDNMPLRGKQLRVR   84 (99)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTT-----T----EEEEECSSSHHHHHHHHHHTTCCBTTBCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecCC-----C----EEEEEECCHHHHHHHHHHhCCCEeCCceEEEE
Confidence            47899999999999999999999999999999998663     4    99999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        85 ~a~   87 (99)
T 2cpj_A           85 FAC   87 (99)
T ss_dssp             ESS
T ss_pred             EcC
Confidence            654

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.73  E-value=1.4e-18  Score=125.49  Aligned_cols=77  Identities=16%  Similarity=0.247  Sum_probs=70.6

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccC
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSG  212 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~  212 (214)
                      ++|||+|||.++++++|+++|++||.|.+|+++.++.+   |+++|||||+|.+.+ |++|++.|||..+.+++++++..
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a   77 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRET---KKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEA   77 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSS---CCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCC---CCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEc
Confidence            58999999999999999999999999999999998743   677789999999999 99999999999999999998765


Q ss_pred             C
Q 028098          213 S  213 (214)
Q Consensus       213 ~  213 (214)
                      .
T Consensus        78 ~   78 (90)
T 2ki2_A           78 N   78 (90)
T ss_dssp             -
T ss_pred             C
Confidence            3

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=1.1e-17  Score=129.62  Aligned_cols=74  Identities=18%  Similarity=0.230  Sum_probs=67.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC--CCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ--VQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln--G~~l~~~P~~  208 (214)
                      ++++|||+|||+++++++|+++|++||.|++|+|+.++     |    ||||+|++.++|++|++.|+  +..|.+++++
T Consensus        30 ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~k-----G----~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~  100 (119)
T 2ad9_A           30 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGK-----N----QAFIEMNTEEAANTMVNYYTSVTPVLRGQPIY  100 (119)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGGG-----T----EEEEECSCHHHHHHHHHHHHHHCCCBTTBCCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCCC-----C----EEEEEECCHHHHHHHHHHhccCCceECCeEEE
Confidence            47899999999999999999999999999999999874     4    99999999999999999998  4689999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      ++..+
T Consensus       101 V~~a~  105 (119)
T 2ad9_A          101 IQFSN  105 (119)
T ss_dssp             EEECS
T ss_pred             EEEcc
Confidence            87654

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=5.7e-18  Score=126.30  Aligned_cols=80  Identities=19%  Similarity=0.153  Sum_probs=71.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCC-eEEEEEe-eCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC--CCeecccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVG-YKEVRLV-SKESRHPGGDPLILCFVDFVSPAHAATAMDALQ--VQSKVVAP  206 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~-i~~vrl~-~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln--G~~l~~~P  206 (214)
                      ++++|||+|||+++++++|+++|++||. |.+|+++ .++.+   |+++|||||+|.+.++|++|++.||  +..+.+++
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~---g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~   83 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADK---MKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQ   83 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTT---TTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCC---CCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCe
Confidence            3789999999999999999999999998 9999998 55532   5677799999999999999999996  59999999


Q ss_pred             cccccCC
Q 028098          207 NQYQSGS  213 (214)
Q Consensus       207 ~~~~~~~  213 (214)
                      +++.+.+
T Consensus        84 l~V~~a~   90 (109)
T 2dis_A           84 IAVDWAE   90 (109)
T ss_dssp             CEEEESC
T ss_pred             EEEEEcC
Confidence            9987654

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=99.73  E-value=5.4e-18  Score=127.03  Aligned_cols=78  Identities=13%  Similarity=0.122  Sum_probs=70.8

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCC---eEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVG---YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~---i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      +..++|||+|||+++|+++|+++|++||.   |..|+|+.++.    |+++|||||+|.+.++|++||+ |||..|.+++
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~----g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~   83 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRD----GKRRGDALIEMESEQDVQKALE-KHRMYMGQRY   83 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTT----STTCSEEEEEBSSHHHHHHHHT-TTTCCSSSSC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCC----CCEeeEEEEEECCHHHHHHHHH-hCcceeCCeE
Confidence            45789999999999999999999999988   89999998874    5667799999999999999999 9999999999


Q ss_pred             cccccC
Q 028098          207 NQYQSG  212 (214)
Q Consensus       207 ~~~~~~  212 (214)
                      +.+...
T Consensus        84 i~V~~a   89 (107)
T 2lmi_A           84 VEVYEI   89 (107)
T ss_dssp             CCCEEC
T ss_pred             EEEEEC
Confidence            988654

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

Probab=99.72  E-value=7.7e-18  Score=128.47  Aligned_cols=78  Identities=9%  Similarity=0.189  Sum_probs=72.0

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||.++++++|+++|++||.|.+|+|+.++..   |+++|||||+|.+.++|++|+ .|||..|.++++.+.+
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~  111 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFS---GHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLP  111 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTT---SSCEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCC---CCcccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEE
Confidence            689999999999999999999999999999999998633   677889999999999999999 8999999999999876


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus       112 a~  113 (124)
T 2jwn_A          112 KR  113 (124)
T ss_dssp             SS
T ss_pred             CC
Confidence            54

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=99.72  E-value=5.8e-18  Score=134.05  Aligned_cols=80  Identities=19%  Similarity=0.183  Sum_probs=73.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++.+.
T Consensus        69 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~---g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  145 (158)
T 2kn4_A           69 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYT---KESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQ  145 (158)
T ss_dssp             BCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSC---TTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCC---CccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            4789999999999999999999999999999999998632   6677799999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus       146 ~a~  148 (158)
T 2kn4_A          146 MAR  148 (158)
T ss_dssp             EEC
T ss_pred             ECC
Confidence            643

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

Probab=99.72  E-value=9e-18  Score=127.69  Aligned_cols=75  Identities=17%  Similarity=0.210  Sum_probs=68.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ..+|||+|||+++|+++|+++|++| .|.+|+|+.++.    |+++|||||+|.++++|++|| .|||..|.++++.+..
T Consensus        16 ~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~----g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~   89 (109)
T 2dnn_A           16 DLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHV----GRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSP   89 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTT----CCCCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCC----CCCCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEE
Confidence            5799999999999999999999999 899999999864    566779999999999999999 7999999999988754


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        90 a   90 (109)
T 2dnn_A           90 A   90 (109)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=99.72  E-value=6e-18  Score=133.54  Aligned_cols=77  Identities=17%  Similarity=0.157  Sum_probs=71.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCC---eEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVG---YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPN  207 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~---i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~  207 (214)
                      ..++|||+|||+++|+++|+++|++||.   |.+|+|+.++.    |+++|||||+|.+.++|++||+ |||..|.++++
T Consensus        43 ~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~----g~srG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i  117 (136)
T 2hgl_A           43 EGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE----GRQSGEAFVELGSEDDVKMALK-KDRESMGHRYI  117 (136)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSS----SCEEEEEEEECSSHHHHHHHHT-TTEEESSSSEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCC----CCCCeEEEEEECCHHHHHHHHh-cCCCEECCEEE
Confidence            4789999999999999999999999999   88999999874    6788899999999999999999 99999999999


Q ss_pred             ccccC
Q 028098          208 QYQSG  212 (214)
Q Consensus       208 ~~~~~  212 (214)
                      .+...
T Consensus       118 ~V~~a  122 (136)
T 2hgl_A          118 EVFKS  122 (136)
T ss_dssp             EEEEC
T ss_pred             EEEEC
Confidence            88654

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.72  E-value=6.4e-18  Score=143.50  Aligned_cols=79  Identities=13%  Similarity=0.125  Sum_probs=72.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCC--CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFV--GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG--~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ..++|||+|||+++|+++|+++|++||  .|++|+|+.++.+   |++||||||+|.+.++|++||+.|||+.|.++++.
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~t---g~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~  143 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRAN---GQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPV  143 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTT---CCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCC---CccceEEEEEECCHHHHHHHHHHcCCCeECCEEeE
Confidence            367999999999999999999999999  9999999999743   78889999999999999999999999999999999


Q ss_pred             cccC
Q 028098          209 YQSG  212 (214)
Q Consensus       209 ~~~~  212 (214)
                      ++..
T Consensus       144 V~~a  147 (229)
T 3q2s_C          144 VTPV  147 (229)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            8754

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

Probab=99.72  E-value=2.5e-17  Score=121.38  Aligned_cols=74  Identities=16%  Similarity=0.261  Sum_probs=68.8

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||.++++++|+++|++||.|.+|+++..+     |    ||||+|.+.++|++|++.|||..|.++++++.
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~-----g----~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~   96 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEK-----G----CCFIKYDTHEQAAVCIVALANFPFQGRNLRTG   96 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEETTT-----T----EEEEECSSHHHHHHHHHHHTTCEETTEECCCC
T ss_pred             CCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEecCC-----C----EEEEEECCHHHHHHHHHHhCCCeECCeEEEEE
Confidence            37899999999999999999999999999999998432     4    99999999999999999999999999999999


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +++
T Consensus        97 ~a~   99 (101)
T 2la4_A           97 WGK   99 (101)
T ss_dssp             BCC
T ss_pred             ecc
Confidence            875

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.72  E-value=3e-18  Score=135.83  Aligned_cols=77  Identities=16%  Similarity=0.181  Sum_probs=69.3

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ...++|||+|||+++|+++|+++|++|| |++|+|+.++.    |+++|||||+|.+.++|++|| .||+..|.++++.+
T Consensus        44 ~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~----g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V  117 (139)
T 2hgn_A           44 TTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPD----GRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIEL  117 (139)
T ss_dssp             -CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSS----SCSSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCC----CCCceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEE
Confidence            3478999999999999999999999999 77999999874    667779999999999999999 89999999999988


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      ...
T Consensus       118 ~~a  120 (139)
T 2hgn_A          118 FLN  120 (139)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            654

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

Probab=99.72  E-value=1.1e-17  Score=126.05  Aligned_cols=79  Identities=14%  Similarity=0.174  Sum_probs=68.7

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +.+++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.+ |..|.++++.+
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~t---g~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g~~l~V   98 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLT---KRSRGFGFVTFMDQAGVDKVLAQS-RHELDSKTIDP   98 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTT---CCCTTCEEEEESSHHHHHHHHHSS-CEEETTEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCC---CCcCcEEEEEECCHHHHHHHHHHC-CCcCCCEEEEE
Confidence            35789999999999999999999999999999999998743   667779999999999999999886 48899988887


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      ...
T Consensus        99 ~~a  101 (109)
T 2rs2_A           99 KVA  101 (109)
T ss_dssp             EEC
T ss_pred             EEc
Confidence            654

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

Probab=99.71  E-value=3.5e-17  Score=118.38  Aligned_cols=72  Identities=17%  Similarity=0.288  Sum_probs=67.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+++  +     |    ||||+|.+.++|++|++.|||..|.++++++.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~--~-----g----~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   75 (90)
T 2dnq_A            7 GMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--K-----N----YGFVHIEDKTAAEDAIRNLHHYKLHGVNINVE   75 (90)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE--T-----T----EEEEEESSHHHHHHHHHHHTTCBCSSCBCEEE
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE--C-----C----EEEEEECCHHHHHHHHHHhcCCccCCcEEEEE
Confidence            47899999999999999999999999999999998  2     3    99999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        76 ~a~   78 (90)
T 2dnq_A           76 ASK   78 (90)
T ss_dssp             CSS
T ss_pred             ECC
Confidence            653

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

Probab=99.71  E-value=2.4e-17  Score=119.65  Aligned_cols=72  Identities=21%  Similarity=0.281  Sum_probs=67.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||+++++++|+++|++||.|.+|+++.+           ||||+|.+.++|++|++.|||..|.+++++++
T Consensus         9 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~~-----------~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   77 (92)
T 2dgt_A            9 ASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD-----------YAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQ   77 (92)
T ss_dssp             SSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECSS-----------EEEEEESCHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEECC-----------EEEEEECCHHHHHHHHHHhCCCeeCCcEEEEE
Confidence            4789999999999999999999999999999999733           99999999999999999999999999999887


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        78 ~a~   80 (92)
T 2dgt_A           78 LST   80 (92)
T ss_dssp             ESS
T ss_pred             Ecc
Confidence            653

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

Probab=99.71  E-value=1.4e-17  Score=125.76  Aligned_cols=79  Identities=16%  Similarity=0.189  Sum_probs=71.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++++++|+++|++||.|..|+|+.++.+   |+++|||||+|.+.++|++||+. ||..|.++++.+.
T Consensus        26 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~  101 (116)
T 1x4b_A           26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPAS---KRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPK  101 (116)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTT---SSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCC---CCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEE
Confidence            4689999999999999999999999999999999998743   56777999999999999999988 9999999999887


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ...
T Consensus       102 ~a~  104 (116)
T 1x4b_A          102 RAV  104 (116)
T ss_dssp             CCS
T ss_pred             ECC
Confidence            653

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.71  E-value=1.9e-17  Score=124.55  Aligned_cols=77  Identities=16%  Similarity=0.237  Sum_probs=68.1

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCe----EEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGY----KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i----~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      .++++|||+|||.++++++|+++|++||.|    ..+++..       |+++|||||+|.+.++|++|++.|||..|.++
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~-------g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~   95 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMT-------GRMRGQAFITFPNKEIAWQALHLVNGYKLYGK   95 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEEC-------SSSCSEEEEECSSHHHHHHHHHHSTTCBCSSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCC-------CccceEEEEEECCHHHHHHHHHHhCCCEeCCc
Confidence            357999999999999999999999999999    5555552       45566999999999999999999999999999


Q ss_pred             ccccccCC
Q 028098          206 PNQYQSGS  213 (214)
Q Consensus       206 P~~~~~~~  213 (214)
                      ++.+++.+
T Consensus        96 ~l~v~~a~  103 (115)
T 2cpx_A           96 ILVIEFGK  103 (115)
T ss_dssp             BCEEEECC
T ss_pred             EEEEEEcc
Confidence            99988754

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

Probab=99.71  E-value=4.6e-17  Score=119.43  Aligned_cols=76  Identities=18%  Similarity=0.242  Sum_probs=67.6

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..+++|||+|||+++++++|+++|++||.|. ++++.++       ++|||||+|.+.++|++|++.|||..|.++++.+
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~~-------~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   88 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQG-------PRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRV   88 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEET-------TTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEE
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcCC-------CCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            3478999999999999999999999999997 7777653       3349999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ...+
T Consensus        89 ~~a~   92 (97)
T 2e5j_A           89 ALAR   92 (97)
T ss_dssp             EECC
T ss_pred             EEcC
Confidence            7654

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

Probab=99.71  E-value=3.2e-18  Score=126.21  Aligned_cols=78  Identities=17%  Similarity=0.175  Sum_probs=68.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++++++|+++|++||.|.. +++.++..   |+++|||||+|.+.++|++|++ |||..|.++++++.
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~---g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~   90 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRT---GTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLE   90 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEE---ETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCC---CCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEE
Confidence            5789999999999999999999999999888 55555422   5666799999999999999998 99999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        91 ~a~   93 (101)
T 1fj7_A           91 KPK   93 (101)
T ss_dssp             CCS
T ss_pred             EcC
Confidence            653

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

Probab=99.70  E-value=5.6e-17  Score=132.65  Aligned_cols=79  Identities=23%  Similarity=0.209  Sum_probs=73.1

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..+++|||+|||+++++++|+++|++||.|++|+|+.++.    |+++|||||+|.+.++|++|++.|||..|.++++.+
T Consensus        86 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~----g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V  161 (177)
T 2f3j_A           86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRS----GRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDI  161 (177)
T ss_dssp             TTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTT----SSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC----CCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEE
Confidence            4579999999999999999999999999999999999873    566779999999999999999999999999999998


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      ++.
T Consensus       162 ~~a  164 (177)
T 2f3j_A          162 QLV  164 (177)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            764

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.70  E-value=3.6e-17  Score=122.41  Aligned_cols=74  Identities=22%  Similarity=0.336  Sum_probs=69.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||.++++++|+++|++||.|.+|+|+.++     |    ||||+|.+.++|++|++.|||..|.++++++.
T Consensus        24 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~-----g----~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   94 (109)
T 1x4g_A           24 KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK-----G----YSFVRFSTHESAAHAIVSVNGTTIEGHVVKCY   94 (109)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCCC-----C----EEEEEECCHHHHHHHHHHcCCCEECCcEEEEE
Confidence            47899999999999999999999999999999999873     4    99999999999999999999999999999998


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        95 ~a~   97 (109)
T 1x4g_A           95 WGK   97 (109)
T ss_dssp             CCC
T ss_pred             ecC
Confidence            764

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A

Probab=99.70  E-value=2.4e-17  Score=128.73  Aligned_cols=75  Identities=19%  Similarity=0.245  Sum_probs=67.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeE--EEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYK--EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~--~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ..++|||+|||+++|+++|+++|++| .|+  +|+|+.++.    |+++|||||+|.++++|++||+. ++..|.++++.
T Consensus        41 ~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~----GrsrGfaFV~F~~~e~A~~Al~~-~~~~l~gR~I~  114 (126)
T 2hgm_A           41 NDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPE----GKITGEAFVQFASQELAEKALGK-HKERIGHRYIE  114 (126)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSS----SSSCSEEEEEESSTTHHHHHHTT-TTCCBTTBCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCC----CCCceEEEEEECCHHHHHHHHHH-CCCEECCEEEE
Confidence            47899999999999999999999999 777  899998874    66777999999999999999985 77999999998


Q ss_pred             ccc
Q 028098          209 YQS  211 (214)
Q Consensus       209 ~~~  211 (214)
                      +..
T Consensus       115 V~~  117 (126)
T 2hgm_A          115 VFK  117 (126)
T ss_dssp             CEE
T ss_pred             EEE
Confidence            764

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.70  E-value=6.1e-17  Score=126.64  Aligned_cols=78  Identities=21%  Similarity=0.342  Sum_probs=72.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||.++++++|+++|++||.|.+|+++.++..   |+++|||||+|.++++|++|++.|||..+.+++++++.
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~---~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~   78 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKIT---GQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSY   78 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCC---CcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEe
Confidence            689999999999999999999999999999999998733   67888999999999999999999999999999998876


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        79 ~   79 (167)
T 1fxl_A           79 A   79 (167)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=99.70  E-value=2.1e-17  Score=122.07  Aligned_cols=73  Identities=15%  Similarity=0.094  Sum_probs=67.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +..|||+||++.+||++|+++|.+||.|++++++..+     |    ||||+|.++++|++|++.|||.+|.+++|+.+.
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~~k-----G----faFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~   77 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYLNQ-----G----IALCKYTTREEANKAQMALNNCVLANTTIFAES   77 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHTTEEETTEEEEEEC
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcCCC-----c----EEEEEECCHHHHHHHHHHhcCCEECCcEEEEEE
Confidence            6799999999999999999999999999999997632     4    999999999999999999999999999999876


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        78 A~   79 (89)
T 2wbr_A           78 PS   79 (89)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

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

Probab=99.70  E-value=3.5e-17  Score=118.35  Aligned_cols=72  Identities=18%  Similarity=0.253  Sum_probs=67.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|.+|+++.+           ||||+|.+.++|++|++.|||..|.++++++.
T Consensus         8 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~~-----------~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   76 (90)
T 2dnp_A            8 NTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD-----------YAFVHMEKEADAKAAIAQLNGKEVKGKRINVE   76 (90)
T ss_dssp             CSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECSS-----------CEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEECC-----------EEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            4789999999999999999999999999999999743           99999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        77 ~a~   79 (90)
T 2dnp_A           77 LST   79 (90)
T ss_dssp             ESC
T ss_pred             ECC
Confidence            653

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

Probab=99.70  E-value=1.8e-17  Score=125.44  Aligned_cols=72  Identities=19%  Similarity=0.253  Sum_probs=67.0

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||+++++++|+++|++||.|..|+|+..+     |    ||||+|.+.++|++|++.|||+.|.++++.+++
T Consensus        10 ~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~-----g----~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~   80 (111)
T 1whx_A           10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGG-----I----TAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEW   80 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSSS-----S----CEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCCC-----C----EEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            6799999999999999999999999999999987543     4    999999999999999999999999999999876


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        81 a   81 (111)
T 1whx_A           81 A   81 (111)
T ss_dssp             E
T ss_pred             C
Confidence            4

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

Probab=99.70  E-value=1.2e-16  Score=124.77  Aligned_cols=80  Identities=24%  Similarity=0.297  Sum_probs=74.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|.+|+++.++..   |+++|||||+|.+.++|++|++.|||..+.++++++.
T Consensus        86 ~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~  162 (166)
T 3md3_A           86 DTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQT---GSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRIN  162 (166)
T ss_dssp             TCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTT---CCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCC---CCcceEEEEEeCCHHHHHHHHHHhCCCccCCcEEEEE
Confidence            4789999999999999999999999999999999998633   6788899999999999999999999999999999998


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus       163 ~a~  165 (166)
T 3md3_A          163 WAA  165 (166)
T ss_dssp             ESC
T ss_pred             ecC
Confidence            765

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.70  E-value=4.8e-17  Score=124.76  Aligned_cols=74  Identities=14%  Similarity=0.139  Sum_probs=65.9

Q ss_pred             CCCEEEEcCCCCc-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC--Ceeccccc
Q 028098          131 ASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV--QSKVVAPN  207 (214)
Q Consensus       131 ~s~tLfVgnLp~~-~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG--~~l~~~P~  207 (214)
                      ++++|||+|||++ +++++|+++|++||.|.+|+|+..+     |    ||||+|.+.++|++|++.||+  ..|.++++
T Consensus        24 p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~~k-----g----~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l   94 (112)
T 1x4f_A           24 LGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMK-----S----QAFIEMETREDAMAMVDHCLKKALWFQGRCV   94 (112)
T ss_dssp             CCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTT-----T----EEEEECSSHHHHHHHHHHHHHSCCCSSSSCC
T ss_pred             CCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEecCC-----C----EEEEEECCHHHHHHHHHHhccCCceECCEEE
Confidence            4889999999998 9999999999999999999997543     4    999999999999999998865  56999999


Q ss_pred             ccccCC
Q 028098          208 QYQSGS  213 (214)
Q Consensus       208 ~~~~~~  213 (214)
                      .++..+
T Consensus        95 ~V~~a~  100 (112)
T 1x4f_A           95 KVDLSE  100 (112)
T ss_dssp             EEEEEC
T ss_pred             EEEECc
Confidence            887643

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=99.70  E-value=7e-18  Score=117.62  Aligned_cols=74  Identities=16%  Similarity=0.325  Sum_probs=67.5

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ||||+|||+++++++|+++|++||.|.+|+++.++.+   |+++|||||+|.+.++|++|++. ++..+.++++.++.
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~v~~   74 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKT---NKRRGFCFITFKEEEPVKKIMEK-KYHNVGLSKCEIKV   74 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCC---SSSCCCEEEECSSSHHHHHHHTT-SSCCBTTBCCCEEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC---CCcCCEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEE
Confidence            6999999999999999999999999999999988643   56777999999999999999985 99999999998865

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

Probab=99.70  E-value=1.3e-16  Score=117.29  Aligned_cols=72  Identities=21%  Similarity=0.255  Sum_probs=66.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCC--CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPF--VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~f--G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ++++|||+|||+++++++|+++|++|  |.|..|+++.       |    ||||+|.+.++|++|++.|||..|.+++++
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~~-------g----~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   82 (99)
T 2cpd_A           14 SVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIR-------D----YAFVHFSNREDAVEAMKALNGKVLDGSPIE   82 (99)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECS-------S----EEEEEESSHHHHHHHHHHHSSEEETTEEEE
T ss_pred             CcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEeC-------C----eEEEEeCCHHHHHHHHHHhCCCEeCCcEEE
Confidence            47899999999999999999999999  9999998752       3    999999999999999999999999999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +.+.+
T Consensus        83 v~~a~   87 (99)
T 2cpd_A           83 VTLAK   87 (99)
T ss_dssp             EECCC
T ss_pred             EEECC
Confidence            87654

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

Probab=99.69  E-value=1.9e-17  Score=122.05  Aligned_cols=73  Identities=19%  Similarity=0.351  Sum_probs=67.1

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccC
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSG  212 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~  212 (214)
                      ++|||+|||.++++++|+++|++||.|.+|+++.+    +.|    ||||+|.+.++|++|++.|||..+.++++.++..
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~----~~g----~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   72 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN----PPG----FAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELS   72 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS----SSS----EEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEES
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC----CCC----EEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEc
Confidence            58999999999999999999999999999999987    114    9999999999999999999999999999988765


Q ss_pred             C
Q 028098          213 S  213 (214)
Q Consensus       213 ~  213 (214)
                      +
T Consensus        73 ~   73 (101)
T 2hvz_A           73 T   73 (101)
T ss_dssp             S
T ss_pred             c
Confidence            3

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

Probab=99.69  E-value=9.1e-17  Score=118.60  Aligned_cols=73  Identities=19%  Similarity=0.369  Sum_probs=67.2

Q ss_pred             CCCCEEEEcCCCC-cCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          130 DASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       130 ~~s~tLfVgnLp~-~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      .++++|||+|||+ ++++++|+++|++||.|.+|++.  +     |    ||||+|.+.++|++|++.|||..+.+++++
T Consensus        20 ~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~--~-----g----~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~   88 (97)
T 2xnq_A           20 HMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--N-----A----FGFIQFDNPQSVRDAIEXESQEMNFGKKLI   88 (97)
T ss_dssp             CTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC--S-----S----EEEEEESSHHHHHHHHHHHTTSEETTEECE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe--C-----C----EEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            3589999999998 99999999999999999999984  1     3    999999999999999999999999999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      ++..+
T Consensus        89 V~~a~   93 (97)
T 2xnq_A           89 LEVSS   93 (97)
T ss_dssp             EEECC
T ss_pred             EEecC
Confidence            87654

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

Probab=99.69  E-value=6.4e-17  Score=121.25  Aligned_cols=73  Identities=16%  Similarity=0.263  Sum_probs=66.6

Q ss_pred             CCCCEEEEcCCCCc-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          130 DASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       130 ~~s~tLfVgnLp~~-~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ..+++|||+|||++ +++++|+++|++||.|.+|+|  .+     |    ||||+|.+.++|++|++.|||..|.+++++
T Consensus        25 ~~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i--~~-----g----~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   93 (110)
T 1wf1_A           25 SINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--HK-----G----YAFVQYSNERHARAAVLGENGRVLAGQTLD   93 (110)
T ss_dssp             TCSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE--ET-----T----EEEEECSSSHHHHHHHHHHTTCEETTEECC
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE--eC-----C----EEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence            34689999999999 999999999999999999998  11     3    999999999999999999999999999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +...+
T Consensus        94 V~~a~   98 (110)
T 1wf1_A           94 INMAG   98 (110)
T ss_dssp             EEESC
T ss_pred             EEECC
Confidence            87653

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens}

Probab=99.69  E-value=2.9e-17  Score=128.54  Aligned_cols=78  Identities=18%  Similarity=0.287  Sum_probs=68.6

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEE--------EEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCe
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEV--------RLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQS  201 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~v--------rl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~  201 (214)
                      .++++|||+|||+++|+++|+++|++||.|..|        ++...      |+++|||||+|.+.++|++|++.|||+.
T Consensus        43 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~------g~~~g~afV~f~~~~~A~~Ai~~lng~~  116 (143)
T 3egn_A           43 EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKE------GRMKGQAFIGLPNEKAAAKALKEANGYV  116 (143)
T ss_dssp             SCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEE------TTTEEEEEEECSSHHHHHHHHHHHTTBE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccC------CCcccEEEEEeCCHHHHHHHHHHhCCCE
Confidence            347899999999999999999999999998764        33332      5677899999999999999999999999


Q ss_pred             ecccccccccCC
Q 028098          202 KVVAPNQYQSGS  213 (214)
Q Consensus       202 l~~~P~~~~~~~  213 (214)
                      |.++++.++..+
T Consensus       117 ~~g~~l~V~~a~  128 (143)
T 3egn_A          117 LFGKPMVVQFAR  128 (143)
T ss_dssp             ETTEECEEEECC
T ss_pred             eCCcEEEEEECC
Confidence            999999998764

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A

Probab=99.69  E-value=5.3e-17  Score=120.36  Aligned_cols=72  Identities=17%  Similarity=0.235  Sum_probs=66.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|.+|+++.       |    ||||+|.+.++|++|++.|||..|.++++.+.
T Consensus        10 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~~-------~----~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   78 (103)
T 2dgu_A           10 KVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLK-------D----YAFIHFDERDGAVKAMEEMNGKDLEGENIEIV   78 (103)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEECS-------S----CEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEC-------C----EEEEEeCCHHHHHHHHHHHCCCccCCCEEEEE
Confidence            378999999999999999999999999999999873       2    99999999999999999999999999999887


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        79 ~a~   81 (103)
T 2dgu_A           79 FAK   81 (103)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            653

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.69  E-value=6.8e-17  Score=126.94  Aligned_cols=79  Identities=23%  Similarity=0.299  Sum_probs=72.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++++++|+++|++||.|.+|+++.++..   |+++|||||+|.++++|++|++.|||..+.++++.++
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~   78 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKT---GYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVS   78 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTT---TEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCC---CccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEE
Confidence            3789999999999999999999999999999999998632   5677799999999999999999999999999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus        79 ~~   80 (168)
T 1b7f_A           79 YA   80 (168)
T ss_dssp             EC
T ss_pred             ec
Confidence            64

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

Probab=99.69  E-value=3.4e-17  Score=123.95  Aligned_cols=70  Identities=26%  Similarity=0.295  Sum_probs=61.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh---CCCee
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL---QVQSK  202 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L---nG~~l  202 (214)
                      +++|||+|||+++++++|+++|++||.|. ++++.++.++..|+++|||||+|.+.++|++|++.|   +|..|
T Consensus         8 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~~~G~~~   80 (114)
T 2dnl_A            8 SRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLEEDGKLY   80 (114)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEEETTEEE
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhhcCCcEE
Confidence            78999999999999999999999999999 888887744333677889999999999999999998   77744

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=99.68  E-value=1.2e-16  Score=126.27  Aligned_cols=117  Identities=16%  Similarity=0.167  Sum_probs=91.9

Q ss_pred             CCCCCCC-CCCCCCCCCCCCCCCCCCCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEcCCCCcCCHHHHHH
Q 028098           73 ISSYSGG-QSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAH  151 (214)
Q Consensus        73 ~~~~~~~-~~~r~~~gg~~G~~~~~~~~~~~gg~~~~~~~~~r~~g~~~~~p~~~~p~~~s~tLfVgnLp~~~te~eL~~  151 (214)
                      +..|.+. ++..++  .++|..+.++.+...-.                   ....++...++|||+|||.++++++|++
T Consensus        55 fV~f~~~~~A~~A~--~~~~~~~~g~~i~v~~~-------------------~~~~~~~~~~~l~v~nlp~~~t~~~l~~  113 (172)
T 2g4b_A           55 FLEFRSVDETTQAM--AFDGIIFQGQSLKIRRP-------------------HDYQPLPGAHKLFIGGLPNYLNDDQVKE  113 (172)
T ss_dssp             EEEESSHHHHHHHG--GGTTCEETTEECEEECC-------------------SSCCCCTTTTCEEEECCCTTCCHHHHHH
T ss_pred             EEEeCCHHHHHHHH--HhCCcEecCceeeecCC-------------------cccCCCCCCCEEEEEcCCCcCCHHHHHH
Confidence            5567775 444566  58887776654432110                   0011222378999999999999999999


Q ss_pred             hhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccCC
Q 028098          152 IFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSGS  213 (214)
Q Consensus       152 lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~~  213 (214)
                      +|++||.|..|+++.++..   |+++|||||+|.+.++|++|++.|||..+.++++.+++.+
T Consensus       114 ~f~~~G~v~~v~i~~~~~~---g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~As  172 (172)
T 2g4b_A          114 LLTSFGPLKAFNLVKDSAT---GLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS  172 (172)
T ss_dssp             HHHTTSCEEEEEEEECTTT---CSEEEEEEEEESSTTHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             HHHhcCCceEEEEEecCCC---CCcceEEEEEeCCHHHHHHHHHHcCCCEECCeEEEEEeCC
Confidence            9999999999999998633   6788899999999999999999999999999999988754

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

Probab=99.51  E-value=2.5e-18  Score=130.14  Aligned_cols=80  Identities=23%  Similarity=0.276  Sum_probs=72.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEE--------EEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKE--------VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~--------vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      ++++|||+|||.++++++|+++|++||.|..        |+|+.++.+   |+++|||||+|.+.++|++|++.|||..|
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~---g~~~g~afV~f~~~~~A~~Ai~~l~g~~~   82 (116)
T 2lcw_A            6 DNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRET---GKLKGEATVSFDDPPSAKAAIDWFDGKEF   82 (116)
Confidence            4789999999999999999999999999998        889888632   56777999999999999999999999999


Q ss_pred             cccccccccCC
Q 028098          203 VVAPNQYQSGS  213 (214)
Q Consensus       203 ~~~P~~~~~~~  213 (214)
                      .++++.++..+
T Consensus        83 ~g~~l~V~~a~   93 (116)
T 2lcw_A           83 SGNPIKVSFAT   93 (116)
Confidence            99999987653

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

Probab=99.68  E-value=2.9e-17  Score=119.82  Aligned_cols=74  Identities=19%  Similarity=0.241  Sum_probs=65.8

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||.++++++|+++|++||.|..+   .. .    |+++|||||+|.+.++|++|++.|||..|.++++.+.
T Consensus        15 ~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~---~~-~----~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   86 (96)
T 1fjc_A           15 AARTLLAKNLSFNITEDELKEVFEDALEIRLV---SQ-D----GKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLY   86 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSEEEECCE---EE-T----TEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe---CC-C----CCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            47899999999999999999999999987665   22 1    5677899999999999999999999999999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus        87 ~a   88 (96)
T 1fjc_A           87 YT   88 (96)
T ss_dssp             EC
T ss_pred             Ec
Confidence            64

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

Probab=99.68  E-value=8e-18  Score=130.72  Aligned_cols=77  Identities=18%  Similarity=0.183  Sum_probs=68.4

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCe----EEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGY----KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i----~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      ....+|||+|||+++|+++|+++|++||.|    ..|+|+.+++    |+++|||||+|.+.++|++||+. |+..|.++
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~----gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR   95 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPD----GRPTGDAFVLFACEEYAQNALRK-HKDLLGKR   95 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTT----SCEEEEEEECCSSHHHHHHHHTT-TTEESSSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCC----CCEeeEEEEEECCHHHHHHHHHh-CCCeeCCe
Confidence            347899999999999999999999999875    6899998853    77888999999999999999986 99999998


Q ss_pred             cccccc
Q 028098          206 PNQYQS  211 (214)
Q Consensus       206 P~~~~~  211 (214)
                      .+.+..
T Consensus        96 ~i~V~~  101 (123)
T 2dha_A           96 YIELFR  101 (123)
T ss_dssp             EECCEE
T ss_pred             EEEEEE
Confidence            887753

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

Probab=99.68  E-value=3.4e-17  Score=125.06  Aligned_cols=75  Identities=12%  Similarity=0.078  Sum_probs=67.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG-~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ...+|||+|||+++++++|+++|++|| .|..|+++.++       ++|||||+|.+.++|++|++.|||..|.++++++
T Consensus        27 ~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~~-------~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V   99 (111)
T 2jvr_A           27 KRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRD-------FDGTGALEFPSEEILVEALERLNNIEFRGSVITV   99 (111)
T ss_dssp             CCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSCS-------SSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcCC-------CCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence            478999999999999999999999999 89999886442       3349999999999999999999999999999988


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      ...
T Consensus       100 ~~a  102 (111)
T 2jvr_A          100 ERD  102 (111)
T ss_dssp             EES
T ss_pred             EEC
Confidence            654

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

Probab=99.68  E-value=1.7e-16  Score=119.56  Aligned_cols=72  Identities=31%  Similarity=0.522  Sum_probs=67.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||.++++++|+++|++||.|++|+++  +     |    ||||+|.+.++|++|++.|||..|.++++++.
T Consensus        30 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~--k-----g----~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~   98 (108)
T 2jvo_A           30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--N-----G----FAFVEFEEAESAAKAIEEVHGKSFANQPLEVV   98 (108)
T ss_dssp             SCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE--T-----T----EEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE--C-----C----EEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence            47899999999999999999999999999999998  2     4    99999999999999999999999999999988


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        99 ~a~  101 (108)
T 2jvo_A           99 YSK  101 (108)
T ss_dssp             SCS
T ss_pred             Eec
Confidence            764

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

Probab=99.67  E-value=1.1e-16  Score=117.37  Aligned_cols=71  Identities=18%  Similarity=0.377  Sum_probs=65.8

Q ss_pred             CCCEEEEcCCCC-cCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~-~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ++++|||+|||+ ++++++|+++|++||.|.+|+|.  +     |    ||||+|.+.++|++|++.|||..+.++++++
T Consensus         9 ~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~--~-----g----~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V   77 (96)
T 2kvi_A            9 PKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--N-----A----FGFIQFDNPQSVRDAIECESQEMNFGKKLIL   77 (96)
T ss_dssp             CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE--T-----T----EEEEEESCHHHHHHHHHHHTCSSCBTTTBCE
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe--C-----C----EEEEEECCHHHHHHHHHHcCCCeeCCcEEEE
Confidence            488999999999 99999999999999999999984  1     3    9999999999999999999999999999988


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      ...
T Consensus        78 ~~a   80 (96)
T 2kvi_A           78 EVS   80 (96)
T ss_dssp             EEE
T ss_pred             EEc
Confidence            654

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

Probab=99.67  E-value=1.7e-16  Score=115.67  Aligned_cols=76  Identities=11%  Similarity=0.076  Sum_probs=68.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEE-EeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVR-LVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vr-l~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .+++|||+|||+++++++|+++|++||.|.+|+ |+.++.+   |    .|||+|.+.++|++|++.|||..|.++++++
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~---~----~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V   86 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSET---A----VVNVTYSSKDQARQALDKLNGFQLENFTLKV   86 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSS---E----EEEEEESSHHHHHHHHHHHTTCBCSSCBCEE
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCC---C----EEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            478999999999999999999999999999995 7777532   3    5999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ...+
T Consensus        87 ~~a~   90 (96)
T 2e44_A           87 AYIP   90 (96)
T ss_dssp             EECC
T ss_pred             EEcC
Confidence            7653

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

Probab=99.67  E-value=1.5e-16  Score=132.02  Aligned_cols=77  Identities=14%  Similarity=0.155  Sum_probs=71.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++++++|+++|++||.|++|+|+.++     +.++|||||+|.+.++|++|++.|||..|.++++.+.+
T Consensus       103 ~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~-----~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~  177 (213)
T 4f02_A          103 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDE-----NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGR  177 (213)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEET-----TEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             cccceECCcccccHHHHHHHHHhhcCCeEEEEeeccC-----CCCceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            5799999999999999999999999999999999986     34577999999999999999999999999999999876


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      ..
T Consensus       178 a~  179 (213)
T 4f02_A          178 FK  179 (213)
T ss_dssp             CC
T ss_pred             cC
Confidence            53

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

Probab=99.67  E-value=1.5e-16  Score=128.19  Aligned_cols=79  Identities=13%  Similarity=0.189  Sum_probs=71.5

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..+++|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++. ++..+.++++.+
T Consensus        11 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~v   86 (196)
T 1l3k_A           11 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNT---KRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEP   86 (196)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHT-CSCEETTEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCC---CCccceEEEEeCCHHHHHHHHhc-CCCEECCEEeee
Confidence            45899999999999999999999999999999999998743   67888999999999999999976 899999999887


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      ...
T Consensus        87 ~~~   89 (196)
T 1l3k_A           87 KRA   89 (196)
T ss_dssp             EEC
T ss_pred             ecc
Confidence            654

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

Probab=99.67  E-value=2.7e-16  Score=128.48  Aligned_cols=80  Identities=14%  Similarity=0.215  Sum_probs=73.8

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||.++++++|+++|++||.|..|+++.++..   |+++|||||+|.+.++|++|++.|||..|.++++.+.
T Consensus       124 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~---g~~~g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~V~  200 (216)
T 2qfj_A          124 AFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTT---GKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVG  200 (216)
T ss_dssp             TSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCBCSSSBCEEE
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCC---CCcCceEEEEecCHHHHHHHHHHccCCEeCCcEEEEE
Confidence            3689999999999999999999999999999999998643   6788899999999999999999999999999999887


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +..
T Consensus       201 ~a~  203 (216)
T 2qfj_A          201 KAV  203 (216)
T ss_dssp             ECS
T ss_pred             Eec
Confidence            654

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.66  E-value=9.9e-17  Score=121.85  Aligned_cols=68  Identities=18%  Similarity=0.206  Sum_probs=62.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ..++|||+|||+++++++|+++|++||.|++|+|+.+      |    ||||+|.+.++|++||+.|||+.|.+++++
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~------g----~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~   82 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD------G----TGVVEFVRKEDMTYAVRKLDNTKFRSHEGE   82 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT------S----EEEEEESSHHHHHHHHHHHTTCBCCCTTSC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC------C----EEEEEECCHHHHHHHHHHhCCCEECCcEee
Confidence            4689999999999999999999999999999999876      3    999999999999999999999999999843

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.66  E-value=1e-16  Score=116.40  Aligned_cols=73  Identities=15%  Similarity=0.196  Sum_probs=64.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCC-eEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC-Ceecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVG-YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV-QSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~-i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG-~~l~~~P~~  208 (214)
                      .+++|||+|||+++++++|+++|++||. |..+.+.. +     |    ||||+|.+.++|++|++.||| ..|.+++++
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~~-~-----g----~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~   76 (93)
T 2cqh_A            7 GMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLK-S-----G----YAFVDYPDQNWAIRAIETLSGKVELHGKIME   76 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEE-T-----T----EEEECCSCHHHHHHHHHHHTTTCEETTEECE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEcC-C-----C----EEEEEECCHHHHHHHHHHccCCeeECCEEEE
Confidence            4789999999999999999999999999 66565532 1     4    999999999999999999999 999999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +.+.+
T Consensus        77 v~~a~   81 (93)
T 2cqh_A           77 VDYSV   81 (93)
T ss_dssp             EEECC
T ss_pred             EEEcc
Confidence            87653

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

Probab=99.66  E-value=3.6e-17  Score=120.75  Aligned_cols=73  Identities=18%  Similarity=0.280  Sum_probs=64.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .+++|||+|||+++++++|+++|++||.|.+|+|+.++.    |+++|||||+|.+.++|++|++  +|..+.++++.+
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v   80 (102)
T 2xs2_A            8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRT----GVSKGYGFVSFYNDVDVQKIVE--SQINFHGKKLKL   80 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT----SCEEEEEEEEESSCCCHHHHTT--CCCEETTEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCC----CCccceEEEEECCHHHHHHHHh--CCCeECCEEEEE
Confidence            468999999999999999999999999999999999973    6788899999999999999998  666666666554

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.66  E-value=6.2e-16  Score=113.34  Aligned_cols=73  Identities=18%  Similarity=0.190  Sum_probs=65.5

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .++++|||+||  ++++++|+++|++||.|.+|+|...         +|||||+|.+.++|++|++.|||..|.++++.+
T Consensus        13 ~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~~~---------~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v   81 (97)
T 1x5p_A           13 RKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMDPP---------RNCAFVTYEKMESADQAVAELNGTQVESVQLKV   81 (97)
T ss_dssp             CCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEETT---------TTEEEEEESSHHHHHHHHHHTTTEEETTEEEEE
T ss_pred             CCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEecCC---------CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence            34789999996  8999999999999999999998532         239999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+..
T Consensus        82 ~~a~   85 (97)
T 1x5p_A           82 NIAR   85 (97)
T ss_dssp             ECCS
T ss_pred             EECC
Confidence            8754

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=99.66  E-value=1.5e-16  Score=146.84  Aligned_cols=79  Identities=16%  Similarity=0.197  Sum_probs=73.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +.++|||+|||+++|+++|.++|++||.|+.|+|+.++.+   |+++|||||+|.+.++|++||+.|||+.|.+++|.+.
T Consensus       101 ~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~t---g~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~  177 (437)
T 3pgw_S          101 AFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRS---GKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVD  177 (437)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCC---CCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEE
Confidence            4789999999999999999999999999999999998633   6777899999999999999999999999999999987


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus       178 ~a  179 (437)
T 3pgw_S          178 VE  179 (437)
T ss_pred             Ee
Confidence            64

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

Probab=99.66  E-value=1.8e-16  Score=123.83  Aligned_cols=76  Identities=12%  Similarity=0.163  Sum_probs=70.1

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccC
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSG  212 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~  212 (214)
                      ++|||+|||.++++++|+++|++||.|.+|+++.++.    |+++|||||+|.+.++|++|++.|||..+.++++.+.+.
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~----~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~   76 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKN----NKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWA   76 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-----CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCC----CCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEc
Confidence            4899999999999999999999999999999999874    556779999999999999999999999999999988754

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

Probab=99.66  E-value=5.3e-16  Score=120.88  Aligned_cols=72  Identities=14%  Similarity=0.127  Sum_probs=63.5

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccE-EEEEecCHHHHHHHHHHhCCCeecc--ccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL-CFVDFVSPAHAATAMDALQVQSKVV--APNQY  209 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~-aFVeF~~~~~A~~Al~~LnG~~l~~--~P~~~  209 (214)
                      -.|||+||++.+++++|+++|++||.|++|+|+..    + |    | |||+|.+.++|++|++.|||..|.+  .++++
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~----~-G----f~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V   96 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKR----N-G----IQAMVEFESVLCAQKAKAALNGADIYAGCCTLKI   96 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEES----S-S----EEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEE
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeC----C-C----CEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEE
Confidence            34679999999999999999999999999999653    1 3    7 9999999999999999999999988  57887


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      +..+
T Consensus        97 ~~Ak  100 (124)
T 2e5i_A           97 EYAR  100 (124)
T ss_dssp             ECCS
T ss_pred             EEec
Confidence            7654

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A

Probab=99.65  E-value=2.7e-16  Score=123.92  Aligned_cols=75  Identities=19%  Similarity=0.318  Sum_probs=69.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++++++|+++|++||.|.+|+|+.+.    +|    ||||+|.+.++|++|++.|||..|.++++.+.
T Consensus        72 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~----~g----~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  143 (150)
T 2i2y_A           72 LDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNP----PG----FAFVEFEDPRDAADAVRELDGRTLCGCRVRVE  143 (150)
T ss_dssp             TSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSSS----CS----EEEEEESSHHHHHHHHHHHSSSCSSSSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeCC----Cc----EEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence            47899999999999999999999999999999998872    14    99999999999999999999999999999988


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus       144 ~a~  146 (150)
T 2i2y_A          144 LSN  146 (150)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            754

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.65  E-value=3.7e-16  Score=123.27  Aligned_cols=78  Identities=22%  Similarity=0.376  Sum_probs=71.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc---ccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV---APN  207 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~---~P~  207 (214)
                      ..++|||+|||.++|+++|+++|++||.|.+|+++.++.    |+++|||||+|.+.++|++|++.|||..+..   +|+
T Consensus        94 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~----g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l  169 (175)
T 3nmr_A           94 EDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPD----GLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPM  169 (175)
T ss_dssp             GGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT----SCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCC
T ss_pred             CCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCC----CCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCe
Confidence            478999999999999999999999999999999999864    6778899999999999999999999998874   899


Q ss_pred             ccccC
Q 028098          208 QYQSG  212 (214)
Q Consensus       208 ~~~~~  212 (214)
                      ++++.
T Consensus       170 ~V~~a  174 (175)
T 3nmr_A          170 VVKFA  174 (175)
T ss_dssp             EEEEC
T ss_pred             EEEec
Confidence            88764

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.65  E-value=1.6e-16  Score=113.46  Aligned_cols=70  Identities=16%  Similarity=0.225  Sum_probs=65.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCC----C-------CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPF----V-------GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV  199 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~f----G-------~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG  199 (214)
                      ++++|||+|||+++++++|+++|++|    |       .|.+|++..++     |    ||||+|.+.++|++|+ .|||
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~k-----g----~afV~f~~~~~a~~A~-~l~g   74 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK-----N----FAFLEFRSVDETTQAM-AFDG   74 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSSS-----S----EEEEEESSHHHHHHHG-GGTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCCC-----c----EEEEEcCCHHHHHHHH-hcCC
Confidence            37899999999999999999999999    8       89999998663     4    9999999999999999 9999


Q ss_pred             Ceecccccccc
Q 028098          200 QSKVVAPNQYQ  210 (214)
Q Consensus       200 ~~l~~~P~~~~  210 (214)
                      ..+.+++++++
T Consensus        75 ~~~~g~~l~V~   85 (87)
T 2hzc_A           75 IIFQGQSLKIR   85 (87)
T ss_dssp             CEETTEECEEE
T ss_pred             CEECCeEEEEe
Confidence            99999998875

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.65  E-value=3.4e-16  Score=123.49  Aligned_cols=79  Identities=23%  Similarity=0.403  Sum_probs=68.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec---cccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV---VAPN  207 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~---~~P~  207 (214)
                      .+++|||+|||+++++++|+++|++||.|.+|+|+.++.+.. ++++|||||+|.+.++|++|++.|||..+.   ..++
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~-~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~   80 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNP-PQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPI   80 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSS-CEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCC-CCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccce
Confidence            378999999999999999999999999999999999974310 267889999999999999999999998876   4555


Q ss_pred             ccc
Q 028098          208 QYQ  210 (214)
Q Consensus       208 ~~~  210 (214)
                      .+.
T Consensus        81 ~~~   83 (175)
T 3nmr_A           81 QMK   83 (175)
T ss_dssp             EEE
T ss_pred             EEc
Confidence            544

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A

Probab=99.65  E-value=2.2e-16  Score=113.95  Aligned_cols=72  Identities=21%  Similarity=0.227  Sum_probs=65.8

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||+++++++|+++|++| .|.+|++..         ++|||||+|.++++|++|++.|||..+.++++++++
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~~---------~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~   74 (88)
T 1wg1_A            5 SSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVDR---------NKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQL   74 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEEG---------GGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEeC---------CCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEE
Confidence            6899999999999999999999999 999999851         234999999999999999999999999999999877


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      ..
T Consensus        75 a~   76 (88)
T 1wg1_A           75 QP   76 (88)
T ss_dssp             CC
T ss_pred             cC
Confidence            54

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

Probab=99.65  E-value=8.5e-16  Score=111.99  Aligned_cols=72  Identities=15%  Similarity=0.232  Sum_probs=64.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++++++|+++|++||.|.+|  +.++.+   |+   ||||+|.+.++|++|++ |||..|.++++.++.
T Consensus         8 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~~---g~---~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~   78 (94)
T 2e5g_A            8 LRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKDK---GV---FAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRP   78 (94)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSSS---CC---EEEEEESSHHHHHHHHT-CSCCEETTEECCCBC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCCC---Cc---EEEEEECCHHHHHHHHh-cCCeEECCEEEEEEE
Confidence            6799999999999999999999999999987  444322   33   99999999999999999 999999999999876


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        79 a   79 (94)
T 2e5g_A           79 R   79 (94)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.64  E-value=4.7e-16  Score=125.43  Aligned_cols=81  Identities=22%  Similarity=0.277  Sum_probs=74.4

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ...++|||+|||.++++++|+++|++||.|.+|+++.++..   |+++|||||+|.+.++|++|++.|||..|.++++++
T Consensus       112 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v  188 (198)
T 2yh0_A          112 DSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSAT---GLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV  188 (198)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTT---CSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCC---CCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            45799999999999999999999999999999999998633   677889999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+.+
T Consensus       189 ~~a~  192 (198)
T 2yh0_A          189 QRAS  192 (198)
T ss_dssp             EESC
T ss_pred             EECC
Confidence            7654

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

Probab=99.64  E-value=5.1e-16  Score=126.85  Aligned_cols=79  Identities=14%  Similarity=0.164  Sum_probs=69.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++.+.
T Consensus        27 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~  103 (216)
T 2qfj_A           27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVT---MKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVG  103 (216)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC----CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEE
T ss_pred             cCCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCC---CccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEe
Confidence            3689999999999999999999999999999999988732   5667799999999999999999999999999999886


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus       104 ~~  105 (216)
T 2qfj_A          104 RP  105 (216)
T ss_dssp             CC
T ss_pred             cC
Confidence            53

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.64  E-value=1.3e-15  Score=119.51  Aligned_cols=78  Identities=19%  Similarity=0.303  Sum_probs=71.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc--cccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV--APNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~--~P~~  208 (214)
                      .+++|||+|||.++++++|+++|++||.|..++++.++..   |+++|||||+|.+.++|++|++.|||..+.+  +|++
T Consensus        88 ~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~  164 (168)
T 1b7f_A           88 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLT---GRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLS  164 (168)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCE
T ss_pred             CCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCC---CCcceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEE
Confidence            3689999999999999999999999999999999998732   6778899999999999999999999999988  8888


Q ss_pred             ccc
Q 028098          209 YQS  211 (214)
Q Consensus       209 ~~~  211 (214)
                      +..
T Consensus       165 V~~  167 (168)
T 1b7f_A          165 VRL  167 (168)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            764

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.63  E-value=3.9e-16  Score=127.23  Aligned_cols=76  Identities=16%  Similarity=0.147  Sum_probs=67.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc--cccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV--APNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~--~P~~  208 (214)
                      ...+|||+||++.+|+++|+++|++||.|++|+|..++       ++|||||+|.+.++|++|++.|||..|.+  ++++
T Consensus        45 ~vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~-------~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~  117 (164)
T 1sjr_A           45 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN-------NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLR  117 (164)
T ss_dssp             CEEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESS-------SCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEE
T ss_pred             ceEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCC-------CCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEE
Confidence            35679999999999999999999999999999987653       23499999999999999999999999976  8888


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +++.+
T Consensus       118 V~~Ak  122 (164)
T 1sjr_A          118 IDFSK  122 (164)
T ss_dssp             EEECS
T ss_pred             EEEec
Confidence            87654

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.63  E-value=3.1e-16  Score=120.68  Aligned_cols=71  Identities=14%  Similarity=0.161  Sum_probs=62.6

Q ss_pred             CCCEEEE--cCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee-----c
Q 028098          131 ASSTLFV--EGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK-----V  203 (214)
Q Consensus       131 ~s~tLfV--gnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l-----~  203 (214)
                      ++++|||  +||++++++++|+++|++||.|.+|.|+.++     |    ||||+|.+.++|++|++.|||..|     .
T Consensus        24 pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~r-----g----faFV~f~~~~~A~~Ai~~lnG~~~~~~lg~   94 (114)
T 2cq2_A           24 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNK-----P----YSFARYRTTEESKRAYVTLNGKEVVDDLGQ   94 (114)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTC-----S----CEEEEESSHHHHHHHHHHTTTCEEECTTSC
T ss_pred             CCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCCC-----C----EEEEEECCHHHHHHHHHHhCCCEEccccCC
Confidence            4789999  7799999999999999999999999887543     4    999999999999999999999988     5


Q ss_pred             ccccccc
Q 028098          204 VAPNQYQ  210 (214)
Q Consensus       204 ~~P~~~~  210 (214)
                      ++|+.+.
T Consensus        95 g~~l~v~  101 (114)
T 2cq2_A           95 KITLYLN  101 (114)
T ss_dssp             EEECEEE
T ss_pred             CcEEEEE
Confidence            6665543

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

Probab=99.63  E-value=7.7e-16  Score=121.03  Aligned_cols=74  Identities=16%  Similarity=0.151  Sum_probs=65.8

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccE-EEEEecCHHHHHHHHHHhCCCeecc--cccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL-CFVDFVSPAHAATAMDALQVQSKVV--APNQ  208 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~-aFVeF~~~~~A~~Al~~LnG~~l~~--~P~~  208 (214)
                      --.|||+||++.+|+++|+++|++||.|.+|+++.+.        +|| |||+|.+.++|++|++.|||..|.+  .+++
T Consensus        28 VL~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~--------~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~Lr   99 (130)
T 3zzy_A           28 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN--------NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLR   99 (130)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEET--------TEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEE
T ss_pred             eEEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCC--------CCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEE
Confidence            3467799999999999999999999999999987653        237 9999999999999999999999998  8888


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      |++.+
T Consensus       100 I~~ak  104 (130)
T 3zzy_A          100 IDFSK  104 (130)
T ss_dssp             EEECS
T ss_pred             EEecC
Confidence            87754

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=99.62  E-value=9.1e-16  Score=127.84  Aligned_cols=73  Identities=18%  Similarity=0.205  Sum_probs=67.5

Q ss_pred             CCEEEEcCCC-CcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLP-SDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp-~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +++|||+||| +.+++++|+++|++||.|.+|+|+.++    +|    ||||+|.+.++|++|++.|||..|.++++++.
T Consensus         4 ~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~~----~g----~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~   75 (205)
T 3tyt_A            4 SPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSK----PG----AAMVEMADGYAVDRAITHLNNNFMFGQKMNVC   75 (205)
T ss_dssp             CSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTTS----TT----CEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecCC----CC----EEEEEECCHHHHHHHHHHhCCCEECCceEEEE
Confidence            7899999999 899999999999999999999998763    13    99999999999999999999999999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus        76 ~s   77 (205)
T 3tyt_A           76 VS   77 (205)
T ss_dssp             EC
T ss_pred             Ec
Confidence            53

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.62  E-value=1.3e-15  Score=113.80  Aligned_cols=70  Identities=13%  Similarity=0.150  Sum_probs=62.2

Q ss_pred             CCE-EEEcCCCCcCCHHH----HHHhhcCC-CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          132 SST-LFVEGLPSDCSRRE----VAHIFRPF-VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       132 s~t-LfVgnLp~~~te~e----L~~lF~~f-G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      +.| |||+|||+.+++++    |+++|++| |.|.+|.         +|    +|||+|.+.++|++|++.|||..+.++
T Consensus         8 ~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~Vt---------gG----~AfV~F~~~esA~~A~~~l~G~~l~gr   74 (96)
T 2diu_A            8 CHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSIT---------GC----SAILRFINQDSAERAQKRMENEDVFGN   74 (96)
T ss_dssp             SSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECC---------TT----CEEEEESSHHHHHHHHHHHTTCCSSSS
T ss_pred             cceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEe---------cC----EEEEEECCHHHHHHHHHHhcCCccCCc
Confidence            556 99999999999988    55899999 5999881         13    999999999999999999999999999


Q ss_pred             ccccccCCC
Q 028098          206 PNQYQSGST  214 (214)
Q Consensus       206 P~~~~~~~~  214 (214)
                      ||+++..++
T Consensus        75 ~i~v~~A~~   83 (96)
T 2diu_A           75 RIIVSFTPK   83 (96)
T ss_dssp             CCEEESSCC
T ss_pred             eEEEEecCC
Confidence            999987654

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=99.62  E-value=1.3e-15  Score=130.28  Aligned_cols=77  Identities=18%  Similarity=0.203  Sum_probs=70.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHH----HhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          131 ASSTLFVEGLPSDCSRREVA----HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~----~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      ++++|||+|||+++++++|+    ++|++||.|++|+++.+      |+++|||||+|.+.++|++|++.|||..|.+++
T Consensus         8 ~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~~------~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   81 (282)
T 3pgw_A            8 PNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRS------LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKP   81 (282)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcCC------CCcceEEEEEECCHHHHHHHHHHhcCCeeCCcE
Confidence            48899999999999999976    99999999999998863      566779999999999999999999999999999


Q ss_pred             cccccCC
Q 028098          207 NQYQSGS  213 (214)
Q Consensus       207 ~~~~~~~  213 (214)
                      +++.+.+
T Consensus        82 l~v~~a~   88 (282)
T 3pgw_A           82 MRIQYAK   88 (282)
T ss_pred             EEEEEec
Confidence            9987653

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

Probab=99.61  E-value=1.6e-15  Score=122.14  Aligned_cols=78  Identities=12%  Similarity=0.226  Sum_probs=71.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||.++++++|+++|++||.|..|+|+.++..   |+++|||||+|.+.++|++|++. +|..|.++++.+.
T Consensus       103 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~F~~~~~A~~A~~~-~~~~~~G~~i~v~  178 (196)
T 1l3k_A          103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS---GKKRGFAFVTFDDHDSVDKIVIQ-KYHTVNGHNCEVR  178 (196)
T ss_dssp             CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHC-SCCEETTEECEEE
T ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCC---CCccceEEEEECCHHHHHHHHHh-CCcEECCEEEEEE
Confidence            3689999999999999999999999999999999998733   67888999999999999999976 7999999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus       179 ~a  180 (196)
T 1l3k_A          179 KA  180 (196)
T ss_dssp             EC
T ss_pred             ec
Confidence            64

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.61  E-value=2.4e-15  Score=117.45  Aligned_cols=77  Identities=21%  Similarity=0.325  Sum_probs=69.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc--ccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP--NQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P--~~~  209 (214)
                      .++|||+|||.++++++|+++|++||.|.+++++.++..   |+++|||||+|.+.++|++|++.|||..+.++.  +++
T Consensus        88 ~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~---g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v  164 (167)
T 1fxl_A           88 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVT---GVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITV  164 (167)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEE
T ss_pred             CCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCC---CCccceEEEEeCCHHHHHHHHHHhcCCccCCCccceEE
Confidence            679999999999999999999999999999999998733   677889999999999999999999999999964  555


Q ss_pred             cc
Q 028098          210 QS  211 (214)
Q Consensus       210 ~~  211 (214)
                      .+
T Consensus       165 ~~  166 (167)
T 1fxl_A          165 KF  166 (167)
T ss_dssp             EE
T ss_pred             Ee
Confidence            43

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=99.61  E-value=4.8e-16  Score=122.18  Aligned_cols=79  Identities=14%  Similarity=0.211  Sum_probs=72.2

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||.++++++|+++|++||.|.+|+++.++.+   |+++|||||+|.+.++|++|++ |+|..+.++++.++
T Consensus        86 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~---g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V~  161 (167)
T 2cjk_A           86 KTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDT---GQSRGFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEIK  161 (167)
T ss_dssp             HCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSS---STTSEEEEEEESSHHHHHHHHH-CSEECSSSSCEEEE
T ss_pred             CCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCC---CccceEEEEEECCHHHHHHHHh-CCCEEeCCeEEEEe
Confidence            3679999999999999999999999999999999998633   6777899999999999999998 89999999999988


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +..
T Consensus       162 ~a~  164 (167)
T 2cjk_A          162 RAE  164 (167)
T ss_dssp             ECC
T ss_pred             ecC
Confidence            764

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=99.60  E-value=1.5e-15  Score=119.32  Aligned_cols=75  Identities=13%  Similarity=0.248  Sum_probs=65.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.  +..+.++++.++.
T Consensus         3 ~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~A~~~--~~~~~g~~i~v~~   77 (167)
T 2cjk_A            3 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPAT---GRSRGFGFLSFEKPSSVDEVVKT--QHILDGKVIDPKR   77 (167)
T ss_dssp             GGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTT---SSCCSCEEEEESSTHHHHHHHHS--CCEETTEECCCEE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCC---CCccceEEEEEccHHHHHHHHhc--ccccCCeEccccc
Confidence            689999999999999999999999999999999998633   66777999999999999999985  5566666666554

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=99.60  E-value=9.2e-16  Score=127.81  Aligned_cols=70  Identities=13%  Similarity=0.105  Sum_probs=64.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCe--EEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGY--KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i--~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      ++++|||+|||+++|+++|+++|++||.|  .+|+++.++     |+++|||||+|.+.++|.+||+.|||+.|.+.
T Consensus       122 p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~-----~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~  193 (205)
T 3tyt_A          122 PSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGK-----SERSSSGLLEWDSKSDALETLGFLNHYQMKNP  193 (205)
T ss_dssp             CCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCC-----SSSSEEEEEECSSHHHHHHHHHHHTTCEECCS
T ss_pred             CcceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCC-----CCCceEEEEEeCCHHHHHHHHHHhCCCCccCC
Confidence            37899999999999999999999999999  899998886     34456999999999999999999999999887

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=99.59  E-value=2.5e-15  Score=124.32  Aligned_cols=77  Identities=12%  Similarity=0.078  Sum_probs=69.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++++++|+++|++||.|.+|+|+.+..    |+++|||||+|.+.++|++|++.++ ..+.++++.+++
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~----~~~kG~aFVeF~~~e~A~~A~~~~~-~~~~Gr~l~V~~  183 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH----KAFKGSIFVVFDSIESAKKFVETPG-QKYKETDLLILF  183 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT----CCEEEEEEEEESSHHHHHHHHHCTT-CEETTEECEEEE
T ss_pred             cCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCC----CCcccEEEEEECCHHHHHHHHHhCC-CeECCEEEEEEE
Confidence            58999999999999999999999999999999999864    6778899999999999999997665 589999999887


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus       184 ~~  185 (193)
T 2voo_A          184 KD  185 (193)
T ss_dssp             TT
T ss_pred             hH
Confidence            54

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=99.58  E-value=3.3e-15  Score=125.12  Aligned_cols=74  Identities=16%  Similarity=0.212  Sum_probs=68.9

Q ss_pred             CCCEEEEcCCCC-cCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~-~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ++++|||+|||+ ++++++|+++|++||.|.+|+|+.++.    |    ||||+|.+.++|++|++.|||..+.++++++
T Consensus        33 ~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~~----g----~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v  104 (229)
T 2adc_A           33 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKK----E----NALVQMADGNQAQLAMSHLNGHKLHGKPIRI  104 (229)
T ss_dssp             CCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTS----C----CEEEEESCHHHHHHHHHHHTTCBCSSSBCEE
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECCC----C----EEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence            489999999999 999999999999999999999998851    3    9999999999999999999999999999998


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      ...
T Consensus       105 ~~a  107 (229)
T 2adc_A          105 TLS  107 (229)
T ss_dssp             ECC
T ss_pred             EEe
Confidence            754

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

Probab=99.58  E-value=1.2e-15  Score=120.20  Aligned_cols=75  Identities=9%  Similarity=0.077  Sum_probs=67.2

Q ss_pred             CEEEEcCC----CCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecC----HHH----HHHHHH--HhC
Q 028098          133 STLFVEGL----PSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVS----PAH----AATAMD--ALQ  198 (214)
Q Consensus       133 ~tLfVgnL----p~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~----~~~----A~~Al~--~Ln  198 (214)
                      ++|||+||    |+.+++.+|+++|++||+|.+|+++.|+.+   |.|+|||||+|.+    +++    |.+|++  .||
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~T---g~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~ln   79 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNS---ALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESS   79 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTT---CCEEEEEEEECC------CCHHHHHHHHHHHTTTT
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC---CceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhc
Confidence            68999999    999999999999999999999999999965   8899999999996    433    788888  799


Q ss_pred             CCeecccccccc
Q 028098          199 VQSKVVAPNQYQ  210 (214)
Q Consensus       199 G~~l~~~P~~~~  210 (214)
                      |..|.++++++.
T Consensus        80 g~~I~Gr~irV~   91 (136)
T 2j8a_A           80 GCFIMGFKFEVI   91 (136)
T ss_dssp             CEEETTEEEEEE
T ss_pred             CCeecCcEEEEE
Confidence            999999998864

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

Probab=99.57  E-value=6e-15  Score=107.37  Aligned_cols=70  Identities=17%  Similarity=0.199  Sum_probs=57.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec--ccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV--VAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~--~~P~~  208 (214)
                      +.++|||+|||+++|+++|+++|++||.|.+|+|+.+        +||||||+|.++++|+    .|+|..+.  ++++.
T Consensus        10 ~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~--------srGfaFV~F~~~~~A~----~~~~~~~~~~g~~v~   77 (89)
T 3d2w_A           10 HGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP--------FRAFAFVTFADDKVAQ----SLCGEDLIIKGISVH   77 (89)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS--------CCSEEEEEESCHHHHH----HHTTCEEEETTEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC--------CCCEEEEEECCHHHHH----HHcCCCcccCCEEEE
Confidence            4789999999999999999999999999999999875        2239999999999988    36676554  66665


Q ss_pred             cccC
Q 028098          209 YQSG  212 (214)
Q Consensus       209 ~~~~  212 (214)
                      +...
T Consensus        78 v~~a   81 (89)
T 3d2w_A           78 ISNA   81 (89)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            5543

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

Probab=99.57  E-value=4.3e-15  Score=127.67  Aligned_cols=74  Identities=20%  Similarity=0.252  Sum_probs=68.9

Q ss_pred             CCCEEEEcCCCCcC---------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCe
Q 028098          131 ASSTLFVEGLPSDC---------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQS  201 (214)
Q Consensus       131 ~s~tLfVgnLp~~~---------te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~  201 (214)
                      .+++|||+||+.++         ++++|+++|++||.|.+|+|+..+     |    ||||+|.+.++|+.|+++|||..
T Consensus       133 ~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~k-----G----~AFV~F~~~~~Ae~A~~am~g~~  203 (240)
T 3u1l_A          133 KNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVESK-----N----CGFVKFKYQANAEFAKEAMSNQT  203 (240)
T ss_dssp             CCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGGG-----T----EEEEEESSHHHHHHHHHHHTTCC
T ss_pred             CCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECCC-----C----EEEEEeCCHHHHHHHHHHhCCCE
Confidence            47899999999998         799999999999999999999764     4    99999999999999999999999


Q ss_pred             e------------cccccccccCC
Q 028098          202 K------------VVAPNQYQSGS  213 (214)
Q Consensus       202 l------------~~~P~~~~~~~  213 (214)
                      |            .++++.+++++
T Consensus       204 l~~~~~~e~~~~~~gr~L~V~wA~  227 (240)
T 3u1l_A          204 LLLPSDKEWDDRREGTGLLVKWAN  227 (240)
T ss_dssp             CCCTTSTTGGGGGGSCCCEEEECC
T ss_pred             EeccccccccccCCCCEEEEEEcc
Confidence            9            89999998875

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.56  E-value=1.8e-14  Score=108.59  Aligned_cols=80  Identities=9%  Similarity=-0.005  Sum_probs=68.6

Q ss_pred             CCCEEEEcCCCC-----cCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          131 ASSTLFVEGLPS-----DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       131 ~s~tLfVgnLp~-----~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      ++++|+|.||..     +-++++|+++|++||.|.+|+|+.++..  .++++|||||+|.+.++|++|++.|||..+.++
T Consensus         7 ~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~--~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr   84 (105)
T 2pe8_A            7 PTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGA--PDDEAVRIFLEFERVESAIKAVVDLNGRYFGGR   84 (105)
T ss_dssp             CCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSC--CTTTSEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCC--CCCCcEEEEEEECCHHHHHHHHHHHCCCEECCc
Confidence            488999999963     3478999999999999999999988621  145677999999999999999999999999999


Q ss_pred             ccccccC
Q 028098          206 PNQYQSG  212 (214)
Q Consensus       206 P~~~~~~  212 (214)
                      ++.+...
T Consensus        85 ~i~v~~a   91 (105)
T 2pe8_A           85 VVKACFY   91 (105)
T ss_dssp             ECEEEEC
T ss_pred             EEEEEEc
Confidence            9987643

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=99.55  E-value=9.6e-15  Score=124.82  Aligned_cols=76  Identities=29%  Similarity=0.447  Sum_probs=70.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec-cccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV-VAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~-~~P~~~  209 (214)
                      ++++|||+|||.++++++|+++|++||.|++|+|+.++.    |    ||||+|.+.++|++|++.|||+.|. ++++++
T Consensus       206 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~~~----g----~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v  277 (282)
T 3pgw_A          206 PNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRH----D----IAFVEFDNEVQAGAARDALQGFKITQNNAMKI  277 (282)
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecCCC----c----EEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEE
Confidence            478999999999999999999999999999999997651    3    9999999999999999999999999 999999


Q ss_pred             ccCCC
Q 028098          210 QSGST  214 (214)
Q Consensus       210 ~~~~~  214 (214)
                      .+.++
T Consensus       278 ~~akk  282 (282)
T 3pgw_A          278 SFAKK  282 (282)
T ss_pred             EEecC
Confidence            88763

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.55  E-value=7.7e-15  Score=116.49  Aligned_cols=114  Identities=13%  Similarity=0.129  Sum_probs=84.3

Q ss_pred             CCCCCCCC-CCCCCCCCCCCCCCCCCCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEcCCCCcCCHHHHHH
Q 028098           73 ISSYSGGQ-SARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAH  151 (214)
Q Consensus        73 ~~~~~~~~-~~r~~~gg~~G~~~~~~~~~~~gg~~~~~~~~~r~~g~~~~~p~~~~p~~~s~tLfVgnLp~~~te~eL~~  151 (214)
                      +..|.+.+ +..++  .++|..+.++.+...-...                 ........+++|||+|||.++++++|++
T Consensus        58 fV~f~~~~~a~~A~--~l~g~~~~g~~l~v~~~~~-----------------~~~~~~~~~~~l~v~nlp~~~t~~~l~~  118 (175)
T 1fje_B           58 YVDFESAEDLEKAL--ELTGLKVFGNEIKLEKPKG-----------------RDSKKVRAARTLLAKNLSFNITEDELKE  118 (175)
T ss_dssp             EEEESSHHHHHHHH--HGGGEEETTEEEEEECCCC-----------------SSCSTTGGGGEEEEESCCSSCCHHHHHH
T ss_pred             EEEECCHHHHHHHH--hcCCCEeCCeEEEEecCCC-----------------ccccccccCCEEEEeCCCCCCCHHHHHH
Confidence            55777753 43566  3888777765543321100                 0011122478999999999999999999


Q ss_pred             hhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccCC
Q 028098          152 IFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSGS  213 (214)
Q Consensus       152 lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~~  213 (214)
                      +|++||.|..+    ...    |+++|||||+|.+.++|++|++.|||..|.++++++.+.+
T Consensus       119 ~F~~~g~v~~~----~~~----~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~  172 (175)
T 1fje_B          119 VFEDALEIRLV----SQD----GKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG  172 (175)
T ss_dssp             HCTTCSEEEEE----CSS----SSCCSEEEEECSSHHHHHHHHHHHTEEEETTEEEEEEECS
T ss_pred             HHHhcCeEEEe----cCC----CCCceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEecC
Confidence            99999987665    222    5666799999999999999999999999999999987653

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.54  E-value=1.6e-14  Score=123.60  Aligned_cols=79  Identities=13%  Similarity=0.074  Sum_probs=72.9

Q ss_pred             CCCEEEEcCCCCcC-CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDC-SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~-te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..++|||+|||.++ ++++|+++|++||.|.+|+|+.++.    |+++|+|||+|.+.++|++|++.|||..|.++++++
T Consensus       183 ~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v  258 (284)
T 3smz_A          183 HSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQD----GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRV  258 (284)
T ss_dssp             SCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECSS----CCEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECCC----CCcccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEE
Confidence            37899999999995 9999999999999999999999874    677889999999999999999999999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+..
T Consensus       259 ~~a~  262 (284)
T 3smz_A          259 SFCA  262 (284)
T ss_dssp             EECC
T ss_pred             EEec
Confidence            7653

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

Probab=99.53  E-value=5.7e-15  Score=106.18  Aligned_cols=70  Identities=17%  Similarity=0.174  Sum_probs=57.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCe--ecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQS--KVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~--l~~~P~~  208 (214)
                      .+++|||+|||+++++++|+++|++||.|.+|+|+.+        ++|||||+|.+.++|++|    ++..  +.+.++.
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~--------~~g~afV~f~~~~~a~~~----~~~~~~~~g~~l~   71 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP--------FRAFAFVTFADDQIAQSL----CGEDLIIKGISVH   71 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS--------CCSCCEEECSCHHHHHHT----TTCEEEETTEEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC--------CCCEEEEEECCHHHHHHH----hcCCceeCCEEEE
Confidence            3789999999999999999999999999999999865        223999999999999754    4443  3666666


Q ss_pred             cccC
Q 028098          209 YQSG  212 (214)
Q Consensus       209 ~~~~  212 (214)
                      +.+.
T Consensus        72 v~~a   75 (88)
T 1wf0_A           72 ISNA   75 (88)
T ss_dssp             EECC
T ss_pred             EEec
Confidence            6544

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.52  E-value=2.9e-14  Score=121.92  Aligned_cols=78  Identities=21%  Similarity=0.243  Sum_probs=72.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++++++|+++|++||.|..|+++.++..   |+++|||||+|.+.++|++|++.|||..+.++++.+.+
T Consensus        95 ~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~---g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~  171 (284)
T 3smz_A           95 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERT---GQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHW  171 (284)
T ss_dssp             SCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCC---CccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            579999999999999999999999999999999988733   67888999999999999999999999999999998875


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus       172 a  172 (284)
T 3smz_A          172 T  172 (284)
T ss_dssp             C
T ss_pred             C
Confidence            4

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=99.52  E-value=3e-14  Score=121.66  Aligned_cols=73  Identities=22%  Similarity=0.302  Sum_probs=67.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||+++|+++|+++|++||.|.+|+|..++     |    ||||+|.+.++|++|++.|||..|.++++.+.
T Consensus        21 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~k-----g----~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~   91 (261)
T 3sde_A           21 QRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDR-----G----FGFIRLESRTLAEIAKAELDGTILKSRPLRIR   91 (261)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEETTT-----T----EEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeCCC-----c----EEEEEECCHHHHHHHHHHcCCcEECCceeEee
Confidence            47899999999999999999999999999999996553     4    99999999999999999999999999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus        92 ~a   93 (261)
T 3sde_A           92 FA   93 (261)
T ss_dssp             EC
T ss_pred             ec
Confidence            64

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

Probab=99.52  E-value=1.2e-14  Score=117.93  Aligned_cols=73  Identities=16%  Similarity=0.213  Sum_probs=68.0

Q ss_pred             CCEEEEcCCCC-cCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~-~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +++|||+|||+ ++++++|+++|++||.|.+|+++.++.    |    ||||+|.+.++|++|++.|||..+.++++++.
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~~----g----~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~   74 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKK----E----NALVQMADGNQAQLAMSHLNGHKLHGKPIRIT   74 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTCS----S----CCEEECTTTHHHHHHHHHHTTCCCSSCCCEEE
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCCC----C----EEEEEECCHHHHHHHHHHhCCCeecCeEEEEE
Confidence            68999999999 999999999999999999999998851    3    99999999999999999999999999999986


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus        75 ~a   76 (198)
T 1qm9_A           75 LS   76 (198)
T ss_dssp             EC
T ss_pred             Ee
Confidence            54

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.51  E-value=2.7e-15  Score=119.13  Aligned_cols=79  Identities=16%  Similarity=0.203  Sum_probs=65.8

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..+++|||+|||.++++++|+++|++||.+..+.+.....    |+++|||||+|.+.++|++|+ .|||..|.++++.+
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~~~~~----~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~v   85 (175)
T 1fje_B           11 TTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRT----GTNRKFGYVDFESAEDLEKAL-ELTGLKVFGNEIKL   85 (175)
T ss_dssp             SSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEE----ETTTTEEEEEESSHHHHHHHH-HGGGEEETTEEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEECCC----CccccEEEEEECCHHHHHHHH-hcCCCEeCCeEEEE
Confidence            4589999999999999999999999999876632222222    456669999999999999999 59999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+..
T Consensus        86 ~~~~   89 (175)
T 1fje_B           86 EKPK   89 (175)
T ss_dssp             ECCC
T ss_pred             ecCC
Confidence            7653

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

Probab=99.48  E-value=1.5e-13  Score=111.47  Aligned_cols=75  Identities=16%  Similarity=0.188  Sum_probs=68.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec-ccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV-VAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG-~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~-~~P~~  208 (214)
                      ++++|||+|||.++++++|+++|++|| .|.+|+++.+.    +|    +|||+|.+.++|++|++.|||..+. +++++
T Consensus       119 ~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~~----~g----~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~  190 (198)
T 1qm9_A          119 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD----RK----MALIQMGSVEEAVQALIDLHNHDLGENHHLR  190 (198)
T ss_dssp             CCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESSTT----SS----CEEEECSSHHHHHHHHHHHTSSCCSSCCSCC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeCC----Cc----EEEEEeCCHHHHHHHHHHhcCCccCCCCeEE
Confidence            378999999999999999999999999 99999997653    13    9999999999999999999999999 99999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +.+.+
T Consensus       191 v~~a~  195 (198)
T 1qm9_A          191 VSFSK  195 (198)
T ss_dssp             EEEEC
T ss_pred             EEeec
Confidence            88754

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=99.48  E-value=5.9e-14  Score=119.82  Aligned_cols=76  Identities=18%  Similarity=0.211  Sum_probs=67.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC-Ceec---cccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV-QSKV---VAPN  207 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG-~~l~---~~P~  207 (214)
                      +++|||+|||..+|+++|+++|++||.|..|+|+.+++    |+++|||||+|.+.++|.+|++.||+ ..+.   ++|+
T Consensus        96 ~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i  171 (261)
T 3sde_A           96 GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDR----GRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPV  171 (261)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETT----SCEEEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBC
T ss_pred             CCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCC----CCcCcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceE
Confidence            67999999999999999999999999999999999963    67788999999999999999999954 4443   7887


Q ss_pred             cccc
Q 028098          208 QYQS  211 (214)
Q Consensus       208 ~~~~  211 (214)
                      .+.+
T Consensus       172 ~v~~  175 (261)
T 3sde_A          172 IVEP  175 (261)
T ss_dssp             EEEE
T ss_pred             EEee
Confidence            7654

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=99.47  E-value=1.3e-13  Score=115.35  Aligned_cols=75  Identities=16%  Similarity=0.188  Sum_probs=68.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec-ccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV-VAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG-~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~-~~P~~  208 (214)
                      ++++|||+|||.++++++|+++|++|| .|.+|+++.+.    +|    ||||+|.+.++|++|++.|||..+. +++++
T Consensus       150 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~----~g----~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~  221 (229)
T 2adc_A          150 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD----RK----MALIQMGSVEEAVQALIDLHNHDLGENHHLR  221 (229)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSS----TT----CEEEEESSHHHHHHHHHHHTTCBSSSSCBCE
T ss_pred             CCCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEECC----Cc----EEEEEECCHHHHHHHHHHHCCCccCCCCeEE
Confidence            378999999999999999999999999 99999997642    13    9999999999999999999999999 99999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +.+.+
T Consensus       222 v~~a~  226 (229)
T 2adc_A          222 VSFSK  226 (229)
T ss_dssp             EEECS
T ss_pred             EEEec
Confidence            98765

>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.46  E-value=2.9e-13  Score=101.95  Aligned_cols=75  Identities=13%  Similarity=0.077  Sum_probs=63.6

Q ss_pred             CCCEEEEcCCCCcC-----------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC
Q 028098          131 ASSTLFVEGLPSDC-----------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV  199 (214)
Q Consensus       131 ~s~tLfVgnLp~~~-----------te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG  199 (214)
                      ++++|+|.||....           ++++|+++|++||.|.+|.| .++.      ++|||||+|.+.++|++|++.|||
T Consensus        14 ~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i-~~~~------~~G~afV~f~~~~~A~~Ai~~lng   86 (112)
T 2dit_A           14 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLL-FDRH------PDGVASVSFRDPEEADYCIQTLDG   86 (112)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE-ETTC------TTCEEEEECSCHHHHHHHHHHSTT
T ss_pred             CceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE-ecCC------CCEEEEEEECCHHHHHHHHHHcCC
Confidence            48999999994433           26899999999999999966 4431      345999999999999999999999


Q ss_pred             CeecccccccccC
Q 028098          200 QSKVVAPNQYQSG  212 (214)
Q Consensus       200 ~~l~~~P~~~~~~  212 (214)
                      ..|.++++++...
T Consensus        87 ~~~~gr~l~v~~a   99 (112)
T 2dit_A           87 RWFGGRQITAQAW   99 (112)
T ss_dssp             CEETTEECEEEEC
T ss_pred             CEECCcEEEEEEe
Confidence            9999999988754

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

Probab=99.46  E-value=6.8e-14  Score=120.09  Aligned_cols=77  Identities=14%  Similarity=0.182  Sum_probs=66.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG-~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +++|||+|||.++++++|+++|++|| .|..|+++.++.    |+++|||||+|.+.++|++|++.|||..|.++++.+.
T Consensus       117 ~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~----~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  192 (292)
T 2ghp_A          117 ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRF----NTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTK  192 (292)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-----------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCC----CCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEE
Confidence            68999999999999999999999999 999999998874    4556699999999999999999999999999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus       193 ~a  194 (292)
T 2ghp_A          193 VS  194 (292)
T ss_dssp             EC
T ss_pred             EC
Confidence            54

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=99.46  E-value=8e-14  Score=109.88  Aligned_cols=71  Identities=15%  Similarity=0.208  Sum_probs=63.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCC----C-------CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPF----V-------GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ  200 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~f----G-------~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~  200 (214)
                      +++|||+|||.++|+++|+++|++|    |       .|.++++..++     |    ||||+|.++++|++|+ .|||.
T Consensus         4 ~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~~~-----g----~afV~f~~~~~A~~A~-~~~~~   73 (172)
T 2g4b_A            4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK-----N----FAFLEFRSVDETTQAM-AFDGI   73 (172)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEETTT-----T----EEEEEESSHHHHHHHG-GGTTC
T ss_pred             ccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecCCC-----C----EEEEEeCCHHHHHHHH-HhCCc
Confidence            6899999999999999999999999    6       77777775443     3    9999999999999999 89999


Q ss_pred             eecccccccccC
Q 028098          201 SKVVAPNQYQSG  212 (214)
Q Consensus       201 ~l~~~P~~~~~~  212 (214)
                      .+.+++++++..
T Consensus        74 ~~~g~~i~v~~~   85 (172)
T 2g4b_A           74 IFQGQSLKIRRP   85 (172)
T ss_dssp             EETTEECEEECC
T ss_pred             EecCceeeecCC
Confidence            999999988754

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

Probab=99.46  E-value=6.5e-14  Score=120.23  Aligned_cols=80  Identities=9%  Similarity=0.104  Sum_probs=71.6

Q ss_pred             CCCEEEEcCCCCc-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~-~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      .+++|||+|||.+ +++++|+++|++||.|..|+|+.+...  .|.++|||||+|.+.++|++|+ .|||..|.++++.+
T Consensus       209 ~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~--tg~~~g~afV~F~~~~~A~~A~-~l~g~~~~g~~i~V  285 (292)
T 2ghp_A          209 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKE--HSFNNCCAFMVFENKDSAERAL-QMNRSLLGNREISV  285 (292)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC-----CCCEEEEEEESSHHHHHHHG-GGTTEEETTEEEEE
T ss_pred             CCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCc--CCCCceEEEEEeCCHHHHHHHH-HhcCCEECCcEEEE
Confidence            4789999999999 999999999999999999999988640  1566779999999999999999 99999999999998


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+..
T Consensus       286 ~~a~  289 (292)
T 2ghp_A          286 SLAD  289 (292)
T ss_dssp             EECC
T ss_pred             EEec
Confidence            8764

>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A

Probab=99.45  E-value=1.6e-13  Score=103.32  Aligned_cols=79  Identities=14%  Similarity=0.063  Sum_probs=66.7

Q ss_pred             CCEEEEcCC--CCcC--------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCe
Q 028098          132 SSTLFVEGL--PSDC--------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQS  201 (214)
Q Consensus       132 s~tLfVgnL--p~~~--------te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~  201 (214)
                      ++.|.+.|+  |.+.        .+++|+++|++||.|.+|+|+.++.++. ++++||+||+|.+.++|++|++.|||..
T Consensus         5 s~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~-~~~~G~~fV~f~~~~~A~~Ai~~lnG~~   83 (105)
T 3v4m_A            5 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVE-VPGCGKIFVEFTSVFDCQKAMQGLTGRK   83 (105)
T ss_dssp             CSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBC-CTTTTEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCC-cCCcEEEEEEECCHHHHHHHHHHhCCCE
Confidence            789999998  3333        3478999999999999999998874321 3567799999999999999999999999


Q ss_pred             eccccccccc
Q 028098          202 KVVAPNQYQS  211 (214)
Q Consensus       202 l~~~P~~~~~  211 (214)
                      +.+++++...
T Consensus        84 f~GR~i~v~~   93 (105)
T 3v4m_A           84 FANRVVVTKY   93 (105)
T ss_dssp             ETTEECEEEE
T ss_pred             eCCCEEEEEE
Confidence            9999998653

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3

Probab=99.43  E-value=4.6e-14  Score=105.98  Aligned_cols=72  Identities=17%  Similarity=0.144  Sum_probs=62.6

Q ss_pred             EEcCCCCcCCHHHHHHhh------------cCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          136 FVEGLPSDCSRREVAHIF------------RPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       136 fVgnLp~~~te~eL~~lF------------~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                      .+.||++++++++|++.|            ++||.|.+|+|+.++.    |+++|||||+|.++++|++|++.|||..+.
T Consensus        19 ~~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~----~~~~G~~fV~f~~~~~A~~A~~~lng~~~~   94 (104)
T 1jmt_A           19 SADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLG----DHLVGNVYVKFRREEDAEKAVIDLNNRWFN   94 (104)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS----SSSEEEEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             ccCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCC----CCccEEEEEEECCHHHHHHHHHHHCCCEEC
Confidence            367888888988888777            9999999999998764    567789999999999999999999999999


Q ss_pred             cccccccc
Q 028098          204 VAPNQYQS  211 (214)
Q Consensus       204 ~~P~~~~~  211 (214)
                      ++++.+..
T Consensus        95 Gr~i~v~~  102 (104)
T 1jmt_A           95 GQPIHAEL  102 (104)
T ss_dssp             TEECCEEE
T ss_pred             CEEEEEEE
Confidence            99998754

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

Probab=99.42  E-value=1.5e-13  Score=110.61  Aligned_cols=71  Identities=15%  Similarity=0.178  Sum_probs=62.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCC----C-------CeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPF----V-------GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ  200 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~f----G-------~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~  200 (214)
                      +++|||+|||+++++++|+++|++|    |       .|.++++...         +|||||+|.+.++|++|+ .|||.
T Consensus         4 ~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~~---------~g~afV~F~~~~~A~~Al-~l~g~   73 (198)
T 2yh0_A            4 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD---------KNFAFLEFRSVDETTQAM-AFDGI   73 (198)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEETT---------TTEEEEEESCSHHHHHHG-GGTTE
T ss_pred             eeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecCC---------CCEEEEEeCCHHHHHHHH-HhcCC
Confidence            7899999999999999999999999    5       5666666433         349999999999999999 89999


Q ss_pred             eecccccccccC
Q 028098          201 SKVVAPNQYQSG  212 (214)
Q Consensus       201 ~l~~~P~~~~~~  212 (214)
                      .|.+++++++..
T Consensus        74 ~~~g~~i~v~~~   85 (198)
T 2yh0_A           74 IFQGQSLKIRRP   85 (198)
T ss_dssp             EETTEEEEEECC
T ss_pred             EEcCceEEEeCC
Confidence            999999988764

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=99.42  E-value=2.8e-13  Score=121.95  Aligned_cols=65  Identities=15%  Similarity=0.191  Sum_probs=58.4

Q ss_pred             CCCCEEEEcC--CCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          130 DASSTLFVEG--LPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       130 ~~s~tLfVgn--Lp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                      .++++|||+|  |++.+||++|+++|++||.|++|+++..+     |    ||||+|.+.++|++|++.|||..+.
T Consensus        16 ~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~~k-----g----faFV~f~~~~~A~~Ai~~lnG~~~~   82 (345)
T 3tht_A           16 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNK-----P----YSFARYRTTEESKRAYVTLNGKEVV   82 (345)
T ss_dssp             SCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCTTC-----S----EEEEEESSHHHHHHHHHHTTTCEEE
T ss_pred             CCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeCCC-----C----EEEEEECCHHHHHHHHHHhCCCccc
Confidence            3588999999  58899999999999999999999886532     4    9999999999999999999999883

>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM, RNA binding domain, ST genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Homo sapiens} SCOP: d.58.7.0 PDB: 3us5_A 2dny_A

Probab=99.38  E-value=1.3e-12  Score=100.51  Aligned_cols=80  Identities=15%  Similarity=0.166  Sum_probs=67.3

Q ss_pred             CCCEEEEcCCCC-----cCCHHHHHHhhcCCCCeEEEEEeeCCCC-CCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc
Q 028098          131 ASSTLFVEGLPS-----DCSRREVAHIFRPFVGYKEVRLVSKESR-HPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV  204 (214)
Q Consensus       131 ~s~tLfVgnLp~-----~~te~eL~~lF~~fG~i~~vrl~~~k~~-~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~  204 (214)
                      ++++|++.|+-.     +-.++||++.|++||.|.+|+|+.++.+ ...++++||+||+|.+.++|++|++.|||..+.+
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~G   98 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAG   98 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEECC
Confidence            388999999942     2247899999999999999999998631 1124667899999999999999999999999999


Q ss_pred             cccccc
Q 028098          205 APNQYQ  210 (214)
Q Consensus       205 ~P~~~~  210 (214)
                      ++++..
T Consensus        99 R~i~v~  104 (118)
T 3ue2_A           99 RKVVAE  104 (118)
T ss_dssp             EECEEE
T ss_pred             cEEEEE
Confidence            998764

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.36  E-value=2.7e-12  Score=96.09  Aligned_cols=72  Identities=14%  Similarity=0.040  Sum_probs=58.4

Q ss_pred             CCEEEEcCCC-------CcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc
Q 028098          132 SSTLFVEGLP-------SDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV  204 (214)
Q Consensus       132 s~tLfVgnLp-------~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~  204 (214)
                      .++|-|.-..       .++++++|+++|++||.|++|+|+.        +++|||||+|.+.++|+.|++.+++  +.+
T Consensus        10 ~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~v~i~~--------~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g   79 (100)
T 2d9o_A           10 TPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLSS--------KKPGTAVVEFATVKAAELAVQNEVG--LVD   79 (100)
T ss_dssp             SCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEEEEEES--------SSSSEEEEEESCHHHHHHHHHTCCB--CSS
T ss_pred             cceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEEEEEcc--------CCCCEEEEEECCHHHHHHHHHhcCC--CCC
Confidence            3466665443       5689999999999999999999982        2344999999999999999998665  578


Q ss_pred             cccccccCC
Q 028098          205 APNQYQSGS  213 (214)
Q Consensus       205 ~P~~~~~~~  213 (214)
                      +|+++++.+
T Consensus        80 ~~l~V~~a~   88 (100)
T 2d9o_A           80 NPLKISWLE   88 (100)
T ss_dssp             SBCEEECSS
T ss_pred             CeEEEEEcc
Confidence            899988764

>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus musculus} PDB: 2lq5_A

Probab=99.18  E-value=9.6e-11  Score=89.57  Aligned_cols=76  Identities=14%  Similarity=0.014  Sum_probs=62.8

Q ss_pred             CCCCCEEEEcCCCCc----------CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC
Q 028098          129 PDASSTLFVEGLPSD----------CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (214)
Q Consensus       129 ~~~s~tLfVgnLp~~----------~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln  198 (214)
                      +.++++|.+.|+=..          -.+++|++.|++||.|.+|.|..+.       ++||+||+|.+.++|++|++.||
T Consensus         4 p~ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~-------~~G~~fV~f~~~e~A~~Ai~~ln   76 (114)
T 3s6e_A            4 PLATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS-------AQGNVYVKCPSIAAAIAAVNALH   76 (114)
T ss_dssp             CCCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC-------TTCCEEEECSSHHHHHHHHHHHT
T ss_pred             CCCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCC-------CcEEEEEEECCHHHHHHHHHHhC
Confidence            345889999998321          2356789999999999999986653       24499999999999999999999


Q ss_pred             CCeeccccccccc
Q 028098          199 VQSKVVAPNQYQS  211 (214)
Q Consensus       199 G~~l~~~P~~~~~  211 (214)
                      |..+.++++.+..
T Consensus        77 G~~f~GR~i~v~~   89 (114)
T 3s6e_A           77 GRWFAGKMITAAY   89 (114)
T ss_dssp             TCEETTEECEEEE
T ss_pred             CCEECCEEEEEEE
Confidence            9999999988653

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

Probab=99.15  E-value=1.1e-10  Score=90.47  Aligned_cols=68  Identities=13%  Similarity=0.044  Sum_probs=60.2

Q ss_pred             CCEEEEcCCCCc-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecC-HHHHHHHHHHhC--CCeeccccc
Q 028098          132 SSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVS-PAHAATAMDALQ--VQSKVVAPN  207 (214)
Q Consensus       132 s~tLfVgnLp~~-~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~-~~~A~~Al~~Ln--G~~l~~~P~  207 (214)
                      +..|||+||+.+ +++++|+++|++||.|..|.++.+..         .|||.|.+ .++|+.|++.||  |..|++..+
T Consensus        18 G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~---------tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~   88 (121)
T 1owx_A           18 GCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAK---------EGIILFKEKAKEALGKAKDANNGNLQLRNKEV   88 (121)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCS---------EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSE
T ss_pred             CeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCC---------EEEEEECCChHHHHHHHHHhhcCCcEEeCcEE
Confidence            889999999999 99999999999999999999999874         79999999 899999999995  566665444


Q ss_pred             c
Q 028098          208 Q  208 (214)
Q Consensus       208 ~  208 (214)
                      +
T Consensus        89 ~   89 (121)
T 1owx_A           89 T   89 (121)
T ss_dssp             E
T ss_pred             E
Confidence            3

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.99  E-value=5.1e-10  Score=82.68  Aligned_cols=70  Identities=19%  Similarity=0.201  Sum_probs=58.7

Q ss_pred             CCEEEEcCCCC----cCCH----HHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          132 SSTLFVEGLPS----DCSR----REVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       132 s~tLfVgnLp~----~~te----~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                      ..||+|.-++.    +.-.    .+|.+.|++||.|..+|++.++           +||+|.+.++|.+|++ |||+.+.
T Consensus         7 d~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d~-----------~fVtF~d~~sAlaAi~-mnG~~v~   74 (91)
T 2dnr_A            7 GGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVEDK-----------MWVTFLEGSSALNVLS-LNGKELL   74 (91)
T ss_dssp             SCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSSS-----------EEEEESSHHHHHHGGG-GTTCEET
T ss_pred             CCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecCC-----------EEEEECChHHHHHHHh-cCCeEeC
Confidence            34888877662    2333    6789999999999999999984           8999999999999998 9999999


Q ss_pred             ccccccccCC
Q 028098          204 VAPNQYQSGS  213 (214)
Q Consensus       204 ~~P~~~~~~~  213 (214)
                      ++.++++--+
T Consensus        75 Gr~LkV~lkt   84 (91)
T 2dnr_A           75 NRTITIALKS   84 (91)
T ss_dssp             TEEEEEEECC
T ss_pred             CeEEEEEeCC
Confidence            9999887543

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157}

Probab=98.83  E-value=5.8e-09  Score=86.53  Aligned_cols=68  Identities=16%  Similarity=0.151  Sum_probs=58.2

Q ss_pred             cCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          143 DCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       143 ~~te~eL~~lF~~fG~i~~vrl~~~k-~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +-.+++|.+.|++||.|.+|.|+.+. ..+..|.++|++||+|.+.++|++|++.|||..+.+++++..
T Consensus       140 ~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~  208 (222)
T 3dxb_A          140 DDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAE  208 (222)
T ss_dssp             TTHHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEE
T ss_pred             HHHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEE
Confidence            34678899999999999999998665 222335788899999999999999999999999999998754

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.81  E-value=2.7e-09  Score=79.33  Aligned_cols=68  Identities=13%  Similarity=0.112  Sum_probs=58.4

Q ss_pred             CCEEEEcCCCCc-----CCH----HHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee
Q 028098          132 SSTLFVEGLPSD-----CSR----REVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       132 s~tLfVgnLp~~-----~te----~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      ..||+|.-++.+     .-.    .+|.+.|++||.|..+|++.++           +||+|.+.++|.+||+ |||+.+
T Consensus        15 D~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~-----------~fVtF~d~~sAl~AI~-ldG~~v   82 (95)
T 1ufw_A           15 DATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ-----------MLVTFADSHSALSVLD-VDGMKV   82 (95)
T ss_dssp             TCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE-----------EEEECSCSHHHHHHHH-GGGSEE
T ss_pred             CCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc-----------EEEEEcChHHHHHHHh-cCCeee
Confidence            349999888743     222    5688999999999999999994           8999999999999998 999999


Q ss_pred             ccccccccc
Q 028098          203 VVAPNQYQS  211 (214)
Q Consensus       203 ~~~P~~~~~  211 (214)
                      .++.++++-
T Consensus        83 ~Gr~L~V~~   91 (95)
T 1ufw_A           83 KGRAVKISG   91 (95)
T ss_dssp             TTEEEEEEC
T ss_pred             CCeEEEEec
Confidence            999998864

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.19  E-value=3.4e-06  Score=64.28  Aligned_cols=70  Identities=13%  Similarity=0.045  Sum_probs=64.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCC-----CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPF-----VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~f-----G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      ..++|-+-|||..+++..|+.|.+++     |.|+.+.|+.+..         -|+|+|.+...|.+|.-+|+|+.|.++
T Consensus        20 ~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH~---------GAivef~d~~~AgKasLaL~G~ef~gr   90 (117)
T 2l9w_A           20 LETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDFN---------GAIIIFRDSKFAAKMLMILNGSQFQGK   90 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTTT---------EEEEECSCHHHHHHHHHHHSSEEETTE
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCCC---------ceEEEEccchhhHHHHhhcCCeeecCe
Confidence            36799999999999999999999999     9999999999973         599999999999999999999999988


Q ss_pred             cccc
Q 028098          206 PNQY  209 (214)
Q Consensus       206 P~~~  209 (214)
                      .++.
T Consensus        91 ~Lr~   94 (117)
T 2l9w_A           91 VIRS   94 (117)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            7754

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=97.97  E-value=4.5e-05  Score=56.83  Aligned_cols=55  Identities=16%  Similarity=0.408  Sum_probs=49.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln  198 (214)
                      ...++| ++|.+....||.++|++||.| .|+.+.|-          -|||.|.+++.|..|+..+.
T Consensus        16 ~HVf~l-~FP~ewKt~DI~~lFs~fggv-~I~WidDT----------sAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           16 DHVLHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDDT----------SAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CSEEEE-ECCTTCCHHHHHHHHTTTCSC-CCEEEETT----------EEEEECSCHHHHHHHHHHHH
T ss_pred             CeEEEE-eCChhhhhHHHHHHhhccCCE-EEEEEcCC----------eEEEEecCHHHHHHHHHhcc
Confidence            567777 999999999999999999965 78888885          89999999999999998773

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=97.39  E-value=0.0003  Score=52.87  Aligned_cols=72  Identities=19%  Similarity=0.145  Sum_probs=59.4

Q ss_pred             CCEEEEcCCCCcC-C----HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          132 SSTLFVEGLPSDC-S----RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       132 s~tLfVgnLp~~~-t----e~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      .++|+|.||+.++ .    .+.++++|..|+.+........-.         =..|.|.++++|.+|...||++.+.+..
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSFR---------Rirv~F~~~~~A~~AR~~Lh~~~f~g~~   75 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFK---------RVRINFSNPLSAADARLRLHKTEFLGKE   75 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTTT---------EEEEECSSTTHHHHHHHTSTTSEETTEE
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcce---------EEEEEeCChHHHHHHHHHhccceecCce
Confidence            4699999998865 2    257799999999988766555532         3689999999999999999999999999


Q ss_pred             cccccC
Q 028098          207 NQYQSG  212 (214)
Q Consensus       207 ~~~~~~  212 (214)
                      +++=.|
T Consensus        76 ~r~YFg   81 (104)
T 1wey_A           76 MKLYFA   81 (104)
T ss_dssp             CEEECC
T ss_pred             eEEEec
Confidence            887555

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=97.37  E-value=0.00032  Score=52.30  Aligned_cols=54  Identities=17%  Similarity=0.402  Sum_probs=47.9

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln  198 (214)
                      ..++| ++|.+....||.++|++||. ..|+.+.|-          -|||.|.+++.|..|+..+.
T Consensus         7 HV~~l-~FP~ewKt~Di~~lFs~fgg-v~I~WidDT----------sAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            7 HVLHV-TFPKEWKTSDLYQLFSAFGN-IQISWIDDT----------SAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEE-ECCTTCCHHHHHHHTTTSEE-EEEEEEETT----------EEEEEEEEECHHHHHHHHHT
T ss_pred             eEEEE-eCChhhhhHHHHHHHhccCC-EEEEEEcCC----------eEEEEecCHHHHHHHHHhcc
Confidence            45666 99999999999999999995 488888884          89999999999999999875

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

Probab=97.35  E-value=0.00067  Score=50.88  Aligned_cols=64  Identities=17%  Similarity=0.170  Sum_probs=54.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCC-----CCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHH----hCCCee
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPF-----VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA----LQVQSK  202 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~f-----G~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~----LnG~~l  202 (214)
                      .++|.|.|||.++.++-|.-+|+.-     |.|..|.....           -|+|+|.+.+.|++.|+.    |+|+.|
T Consensus         8 ~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~~-----------~AvItF~d~~va~rVL~k~~H~L~~~~L   76 (104)
T 2dhx_A            8 GVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLGC-----------GGVLTFREPADAERVLAQADHELHGAQL   76 (104)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEETT-----------EEEEEESSHHHHHHHHTCSCCBSSSSBC
T ss_pred             ccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcCC-----------cEEEEEcChHHHHHHhcCCcceecCeEE
Confidence            5799999999999999999999972     66777766441           699999999999999976    888888


Q ss_pred             cccc
Q 028098          203 VVAP  206 (214)
Q Consensus       203 ~~~P  206 (214)
                      .+.|
T Consensus        77 sV~P   80 (104)
T 2dhx_A           77 SLRP   80 (104)
T ss_dssp             EEEE
T ss_pred             EEEc
Confidence            8877

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=97.34  E-value=0.0014  Score=48.00  Aligned_cols=71  Identities=10%  Similarity=0.158  Sum_probs=58.9

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCC-cccEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGD-PLILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~-~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      ++|.|.+||++.||+++.+.+++...+.....+..+...  +. .-.-|||.|.+.+++..-.+.++|+.+.+.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~--~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D~   73 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSL--YPHMYARAYINFKNQEDIILFRDRFDGYVFLDN   73 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSS--TTCCCEEEEEEESSSHHHHHHHHHHTTCEEECT
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCC--CCCcceEEEEEeCCHHHHHHHHHHhCCcEEEcC
Confidence            489999999999999999999999988777777776211  11 125799999999999999999999988754

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=96.62  E-value=0.0063  Score=46.65  Aligned_cols=63  Identities=11%  Similarity=0.076  Sum_probs=50.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV  204 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~  204 (214)
                      ..+.|-|-+.|... ...|...|++||.|.+.......     .    +-.|.|.++.+|++||. .||..|.+
T Consensus        23 ~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~~~~~-----N----WihI~Y~s~~~A~rAL~-kNG~ii~g   85 (119)
T 1wwh_A           23 DDTWVTVFGFPQAS-ASYILLQFAQYGNILKHVMSNTG-----N----WMHIRYQSKLQARKALS-KDGRIFGE   85 (119)
T ss_dssp             GGGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEECSSS-----S----EEEEEESSHHHHHHHHT-TTTCEETT
T ss_pred             CCCEEEEECCCHHH-HHHHHHHHHhhCcEEEeccCCCC-----C----eEEEEeCCHHHHHHHHH-hCCeEecC
Confidence            36788999999996 56677899999999988873221     1    99999999999999995 47766653

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=96.36  E-value=0.0069  Score=44.83  Aligned_cols=72  Identities=13%  Similarity=0.195  Sum_probs=54.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcc-cEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPL-ILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~k-g~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      +-+|.|+.||+..||+++.+.++++-.+.....+..+.  +.+.+. .-|||.|.+.++...-.+.++|+.+.+.
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~--s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D~   81 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADL--SLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLDS   81 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCS--SSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEECT
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCcc--CCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEeC
Confidence            56899999999999999999888876654444443331  111111 3689999999999999999999987664

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.80  E-value=0.0036  Score=58.11  Aligned_cols=55  Identities=13%  Similarity=0.237  Sum_probs=42.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHH
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMD  195 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~  195 (214)
                      .++|||. .|..+++.+|.+.|++||.|..+.+-.++     |   .|+.|||.+.++++++++
T Consensus        53 ~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~-----g---~~~~vef~~~~~~~~~~~  107 (464)
T 3pq1_A           53 QRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESF-----G---LYAVVEFCQKESIGSLQN  107 (464)
T ss_dssp             HTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSS-----S---EEEEEECC---CCHHHHS
T ss_pred             cceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccC-----C---eEEEEEeCCHHHHHHHHh
Confidence            4799997 79999999999999999999999887665     3   399999999999887754

>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=95.24  E-value=0.0044  Score=47.70  Aligned_cols=38  Identities=11%  Similarity=-0.065  Sum_probs=32.8

Q ss_pred             CCcccEEEEEecCHHHHHHHHHHh-CCCeecccccccccC
Q 028098          174 GDPLILCFVDFVSPAHAATAMDAL-QVQSKVVAPNQYQSG  212 (214)
Q Consensus       174 G~~kg~aFVeF~~~~~A~~Al~~L-nG~~l~~~P~~~~~~  212 (214)
                      .+.+|+++|+|.+.++|++|++.| ||..+.+ ++.+...
T Consensus        10 ~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a   48 (150)
T 2i2y_A           10 KTLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDA   48 (150)
T ss_dssp             SSSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETT
T ss_pred             ccccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccc
Confidence            356779999999999999999999 9999888 8776653

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=94.40  E-value=0.1  Score=48.69  Aligned_cols=55  Identities=16%  Similarity=0.405  Sum_probs=48.2

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln  198 (214)
                      ...++|+ +|..+...+|.++|+.||. .+|+.+.+.          +|||.|.+.+.|..++.+++
T Consensus       440 ~~vl~v~-f~~~~~~~~i~~~fs~fg~-v~V~widdt----------~a~V~~~~~~~a~~~l~~~~  494 (507)
T 3d45_A          440 DHVLHVT-FPKEWKTSDLYQLFSAFGN-IQISWIDDT----------SAFVSLSQPEQVQIAVNTSK  494 (507)
T ss_dssp             GGEEEEE-CCTTCCHHHHHHHGGGGCC-CEEEECSSS----------EEEEECSCHHHHHHHHHHHT
T ss_pred             CcEEEEe-CCCCCCHHHHHHHHHhcCC-EEEEEEcCC----------eEEEEECCHHHHHHHHHHHH
Confidence            4688887 8888899999999999995 478877774          89999999999999999985

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=91.52  E-value=0.14  Score=39.72  Aligned_cols=71  Identities=17%  Similarity=0.128  Sum_probs=43.8

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEE-EEEee---------CC-CCCCCCCcccEEEEEecCHHHHHHHHHHhCCC
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVS---------KE-SRHPGGDPLILCFVDFVSPAHAATAMDALQVQ  200 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~-vrl~~---------~k-~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~  200 (214)
                      ...|.|=+.|.+.+.. +.+.|++||.|.+ +.+..         .+ .+-+.=.-..|-.|.|+++.+|.+||. -||.
T Consensus         7 e~~VtVFGFp~~~~~~-VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~-~NG~   84 (132)
T 3p3d_A            7 ELAILVFGYPETMANQ-VIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALL-ENGA   84 (132)
T ss_dssp             -CEEEEECCCGGGHHH-HHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHT-TTTC
T ss_pred             ceEEEEEecCHHHHHH-HHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHH-hCCe
Confidence            4567788888776654 5578999999977 22111         00 000100002388999999999999994 4555


Q ss_pred             eecc
Q 028098          201 SKVV  204 (214)
Q Consensus       201 ~l~~  204 (214)
                      .|.+
T Consensus        85 ii~G   88 (132)
T 3p3d_A           85 VFNG   88 (132)
T ss_dssp             EETT
T ss_pred             EeCc
Confidence            5544

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	214
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	1e-10
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	1e-08
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	1e-07
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	2e-07
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	3e-07
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	5e-07
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	9e-07
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	9e-07
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	1e-06
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	2e-06
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	2e-06
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	4e-06
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	4e-06
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	4e-06
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	4e-06
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	1e-05
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	1e-05
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	3e-05
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	4e-05
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	6e-05
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	7e-05
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	8e-05
d2b0ga1	83	d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosoph	9e-05
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	1e-04
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	1e-04
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	2e-04
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	2e-04
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	2e-04
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	3e-04
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	3e-04
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	3e-04
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	3e-04
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	3e-04
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	4e-04
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	4e-04
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	5e-04
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	5e-04
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	7e-04
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	7e-04
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	7e-04
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	9e-04
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	0.001
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	0.001
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	0.001
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	0.002
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	0.002
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	0.003
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	0.003

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.2 bits (130), Expect = 1e-10
 Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 3/75 (4%)

Query: 124 EVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVD 183
           +VP     +S + V  +P   ++RE+  +F  F   K VRL  K      G      FVD
Sbjct: 1   QVP-KKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKK--MTGTGAHRGFGFVD 57

Query: 184 FVSPAHAATAMDALQ 198
           F++   A  A +AL 
Sbjct: 58  FITKQDAKKAFNALC 72

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.2 bits (117), Expect = 1e-08
 Identities = 15/72 (20%), Positives = 28/72 (38%), Gaps = 6/72 (8%)

Query: 127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVS 186
           LPP+ +  L++  LP   +  E+  IF  +   +++R           +     +V +  
Sbjct: 2   LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIR------VGNTPETRGTAYVVYED 55

Query: 187 PAHAATAMDALQ 198
              A  A D L 
Sbjct: 56  IFDAKNACDHLS 67

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.5 bits (107), Expect = 1e-07
 Identities = 17/79 (21%), Positives = 29/79 (36%), Gaps = 7/79 (8%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
           G R+     PD +  L V GL    + R++  +F  +    +V +V  +           
Sbjct: 1   GNRAN----PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRR---SRGF 53

Query: 180 CFVDFVSPAHAATAMDALQ 198
            FV F +   A  A +   
Sbjct: 54  AFVYFENVDDAKEAKERAN 72

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.9 bits (106), Expect = 2e-07
 Identities = 15/64 (23%), Positives = 20/64 (31%), Gaps = 4/64 (6%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           L V  L    S  ++  +F  F   K+  +         G  L    V F   A A  AM
Sbjct: 3   LLVSNLDFGVSDADIQELFAEFGTLKKAAVH----YDRSGRSLGTADVHFERKADALKAM 58

Query: 195 DALQ 198
               
Sbjct: 59  KQYN 62

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.9 bits (106), Expect = 3e-07
 Identities = 15/67 (22%), Positives = 28/67 (41%), Gaps = 3/67 (4%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           S TL+V  L    +  ++  +F      K++ +   + +         CFV++ S A A 
Sbjct: 7   SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKT---ACGFCFVEYYSRADAE 63

Query: 192 TAMDALQ 198
            AM  + 
Sbjct: 64  NAMRYIN 70

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 43.8 bits (103), Expect = 5e-07
 Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 3/67 (4%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
            + L+V  LP   +  ++  IF  +     +   +       G P  + FV +     A 
Sbjct: 6   DTNLYVTNLPRTITDDQLDTIFGKY---GSIVQKNILRDKLTGRPRGVAFVRYNKREEAQ 62

Query: 192 TAMDALQ 198
            A+ AL 
Sbjct: 63  EAISALN 69

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 43.4 bits (102), Expect = 9e-07
 Identities = 17/68 (25%), Positives = 27/68 (39%), Gaps = 3/68 (4%)

Query: 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHA 190
           +++ L V  LP D + RE+  +FR       +        +  G      FVDF S   +
Sbjct: 1   SNTNLIVNYLPQDMTDRELYALFRAI---GPINTCRIMRDYKTGYSYGYAFVDFTSEMDS 57

Query: 191 ATAMDALQ 198
             A+  L 
Sbjct: 58  QRAIKVLN 65

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.1 bits (101), Expect = 9e-07
 Identities = 13/64 (20%), Positives = 26/64 (40%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           LF++ L    +   +  +F      K   +  K+++      +   FV++  P  A  A+
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 60

Query: 195 DALQ 198
             LQ
Sbjct: 61  KQLQ 64

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (101), Expect = 1e-06
 Identities = 15/65 (23%), Positives = 25/65 (38%), Gaps = 3/65 (4%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           +L+V  L  D +   +   F P      +R+            L   +V+F  PA A  A
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRR---SLGYAYVNFQQPADAERA 58

Query: 194 MDALQ 198
           +D + 
Sbjct: 59  LDTMN 63

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (100), Expect = 2e-06
 Identities = 11/68 (16%), Positives = 21/68 (30%), Gaps = 3/68 (4%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
           P+    LF+ GL  + +   +   F  +    +                   FV + +  
Sbjct: 3   PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCV---VMRDPNTKRSRGFGFVTYATVE 59

Query: 189 HAATAMDA 196
               AM+A
Sbjct: 60  EVDAAMNA 67

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (100), Expect = 2e-06
 Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 5/69 (7%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHA 190
           +S L V GLP   + +++   F  F     V++    ++ H  G      FV F      
Sbjct: 8   TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKG----FGFVRFTEYETQ 63

Query: 191 ATAMDALQV 199
              M    +
Sbjct: 64  VKVMSQRHM 72

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (98), Expect = 4e-06
 Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 3/69 (4%)

Query: 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAH 189
           D ++T+ V  L  D    ++  +FRPF     +           G      F+ F     
Sbjct: 6   DDNATIRVTNLSEDTRETDLQELFRPFGSISRIY---LAKDKTTGQSKGFAFISFHRRED 62

Query: 190 AATAMDALQ 198
           AA A+  + 
Sbjct: 63  AARAIAGVS 71

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 4e-06
 Identities = 13/70 (18%), Positives = 23/70 (32%), Gaps = 3/70 (4%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
            +  +T++V GL    S   +  +F                    G      FV+F+S  
Sbjct: 6   RNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTH---MPKDRVTGQHQGYGFVEFLSEE 62

Query: 189 HAATAMDALQ 198
            A  A+  + 
Sbjct: 63  DADYAIKIMD 72

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.7 bits (97), Expect = 4e-06
 Identities = 13/69 (18%), Positives = 24/69 (34%), Gaps = 9/69 (13%)

Query: 127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVS 186
            PP  S+TL +  +P   S  ++  +F    G  +     ++ R           +   S
Sbjct: 7   FPP--SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKM-------ALIQMGS 57

Query: 187 PAHAATAMD 195
              A  A+ 
Sbjct: 58  VEEAVQALI 66

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 4e-06
 Identities = 13/66 (19%), Positives = 27/66 (40%), Gaps = 3/66 (4%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAAT 192
           + L+V GLP   +++E+  +F  +      R++  +          + F+ F     A  
Sbjct: 7   ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGV---SRGVGFIRFDKRIEAEE 63

Query: 193 AMDALQ 198
           A+  L 
Sbjct: 64  AIKGLN 69

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (95), Expect = 1e-05
 Identities = 14/67 (20%), Positives = 29/67 (43%), Gaps = 9/67 (13%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           + T++  G+ S  + + +   F PF    E+R+  ++            FV F +   AA
Sbjct: 18  NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGY---------SFVRFSTHESAA 68

Query: 192 TAMDALQ 198
            A+ ++ 
Sbjct: 69  HAIVSVN 75

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.5 bits (94), Expect = 1e-05
 Identities = 16/85 (18%), Positives = 33/85 (38%), Gaps = 7/85 (8%)

Query: 114 RALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPG 173
           +++G  G + E P      + LF+  LP +   +++  +F PF      +          
Sbjct: 4   QSIGAAGSQKEGP----EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAK---VFIDKQT 56

Query: 174 GDPLILCFVDFVSPAHAATAMDALQ 198
                  FV + +P  A  A+ ++ 
Sbjct: 57  NLSKCFGFVSYDNPVSAQAAIQSMN 81

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.4 bits (91), Expect = 3e-05
 Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 5/77 (6%)

Query: 127 LPPDAS--STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDF 184
           LP D +   T+F+  L  D     +  + + F   K VR+V               F  F
Sbjct: 1   LPSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEH---SKGCAFAQF 57

Query: 185 VSPAHAATAMDALQVQS 201
           ++   A   + A  +++
Sbjct: 58  MTQEAAQKCLAAASLEA 74

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.4 bits (89), Expect = 4e-05
 Identities = 11/62 (17%), Positives = 18/62 (29%), Gaps = 3/62 (4%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           +F+ GL    ++  +   F  F   KE                   FV F+  A     +
Sbjct: 3   MFIGGLSWQTTQEGLREYFGQFGEVKECL---VMRDPLTKRSRGFGFVTFMDQAGVDKVL 59

Query: 195 DA 196
             
Sbjct: 60  AQ 61

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (89), Expect = 6e-05
 Identities = 14/66 (21%), Positives = 22/66 (33%), Gaps = 1/66 (1%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAAT 192
             LF+ G+P    R E+            + ++   S           FV++ S   AA 
Sbjct: 2   CRLFIGGIPKMKKREEILEEIAKV-TEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAM 60

Query: 193 AMDALQ 198
           A   L 
Sbjct: 61  ARRKLM 66

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 7e-05
 Identities = 14/67 (20%), Positives = 24/67 (35%), Gaps = 3/67 (4%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           +  LF+ GLP+  +  +V  +   F   K   LV   +           F ++V      
Sbjct: 1   AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGL---SKGYAFCEYVDINVTD 57

Query: 192 TAMDALQ 198
            A+  L 
Sbjct: 58  QAIAGLN 64

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 8e-05
 Identities = 15/65 (23%), Positives = 29/65 (44%), Gaps = 5/65 (7%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TL+V  L  D +   +  +F      K  +++++ + +        CFV+F     AA A
Sbjct: 10  TLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSND-----PYCFVEFYEHRDAAAA 64

Query: 194 MDALQ 198
           + A+ 
Sbjct: 65  LAAMN 69

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 37.5 bits (86), Expect = 9e-05
 Identities = 18/76 (23%), Positives = 34/76 (44%), Gaps = 10/76 (13%)

Query: 123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV 182
           ++   PP  +  LF+  LP + +   ++ +F  F G+KE             +   + FV
Sbjct: 1   AQTEQPP--NQILFLTNLPEETNEMMLSMLFNQFPGFKE--------VRLVPNRHDIAFV 50

Query: 183 DFVSPAHAATAMDALQ 198
           +F +   +  A +ALQ
Sbjct: 51  EFTTELQSNAAKEALQ 66

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.8 bits (87), Expect = 1e-04
 Identities = 15/66 (22%), Positives = 26/66 (39%), Gaps = 3/66 (4%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAAT 192
           + L V  LP + ++ E   +F       E+           G  L   FV+++ P  A  
Sbjct: 3   TNLIVNYLPQNMTQEEFRSLFGSI---GEIESCKLVRDKITGQSLGYGFVNYIDPKDAEK 59

Query: 193 AMDALQ 198
           A++ L 
Sbjct: 60  AINTLN 65

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.3 bits (86), Expect = 1e-04
 Identities = 11/71 (15%), Positives = 25/71 (35%), Gaps = 10/71 (14%)

Query: 132 SSTLFVEGLPSDCS----RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           + T+++  L         ++ +  IF  F    ++ +                FV F   
Sbjct: 3   NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILV------SRSLKMRGQAFVIFKEV 56

Query: 188 AHAATAMDALQ 198
           + A  A+ ++Q
Sbjct: 57  SSATNALRSMQ 67

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.9 bits (85), Expect = 2e-04
 Identities = 13/62 (20%), Positives = 20/62 (32%), Gaps = 3/62 (4%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           +FV GL  D    ++   F  F    EV  +     +        CF+ F         M
Sbjct: 2   IFVGGLSPDTPEEKIREYFGGF---GEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 58

Query: 195 DA 196
           + 
Sbjct: 59  EK 60

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.9 bits (85), Expect = 2e-04
 Identities = 11/67 (16%), Positives = 23/67 (34%), Gaps = 5/67 (7%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
              +F++ L      + +   F  F      ++V  E+           FV F +   A 
Sbjct: 8   VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK-----GYGFVHFETQEAAE 62

Query: 192 TAMDALQ 198
            A++ + 
Sbjct: 63  RAIEKMN 69

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.0 bits (85), Expect = 2e-04
 Identities = 16/70 (22%), Positives = 23/70 (32%), Gaps = 3/70 (4%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
              S  LFV  L    S  ++  +F  +    E+             P    FV F+ P 
Sbjct: 5   SSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKK---PKGFAFVTFMFPE 61

Query: 189 HAATAMDALQ 198
           HA  A   + 
Sbjct: 62  HAVKAYAEVD 71

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.3 bits (83), Expect = 3e-04
 Identities = 9/65 (13%), Positives = 23/65 (35%), Gaps = 4/65 (6%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           + +++++G P+D +  ++            ++      R          FV F S   A 
Sbjct: 6   NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQ----MRRTLHKAFKGSIFVVFDSIESAK 61

Query: 192 TAMDA 196
             ++ 
Sbjct: 62  KFVET 66

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.1 bits (83), Expect = 3e-04
 Identities = 12/62 (19%), Positives = 20/62 (32%), Gaps = 3/62 (4%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           +F+ GL  D +++++   F  F    +  L                FV F         M
Sbjct: 2   MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGR---SRGFGFVLFKESESVDKVM 58

Query: 195 DA 196
           D 
Sbjct: 59  DQ 60

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.2 bits (83), Expect = 3e-04
 Identities = 14/65 (21%), Positives = 25/65 (38%), Gaps = 3/65 (4%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
            L+V GL  +   + +   F PF    ++  +     +         FV+F     AA A
Sbjct: 7   VLYVGGLAEEVDDKVLHAAFIPF---GDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 63

Query: 194 MDALQ 198
           +D + 
Sbjct: 64  IDNMN 68

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.1 bits (83), Expect = 3e-04
 Identities = 15/67 (22%), Positives = 23/67 (34%), Gaps = 9/67 (13%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
            S LFV  LP D +  E+  +F  +    EV +   +            F+   +   A 
Sbjct: 8   RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGF---------GFIRLETRTLAE 58

Query: 192 TAMDALQ 198
            A   L 
Sbjct: 59  IAKVELD 65

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.7 bits (84), Expect = 3e-04
 Identities = 10/77 (12%), Positives = 29/77 (37%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           P + +  L+++ L    + R++  +F  F   K   +  +           + F +    
Sbjct: 14  PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIA 73

Query: 188 AHAATAMDALQVQSKVV 204
             A   ++  ++  K++
Sbjct: 74  WQALHLVNGYKLYGKIL 90

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 36.2 bits (83), Expect = 4e-04
 Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 8/70 (11%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
             A+ TL  + L  + +  E+  +F   +  + V           G    + +++F S A
Sbjct: 13  VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV--------SQDGKSKGIAYIEFKSEA 64

Query: 189 HAATAMDALQ 198
            A   ++  Q
Sbjct: 65  DAEKNLEEKQ 74

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.7 bits (86), Expect = 4e-04
 Identities = 11/68 (16%), Positives = 21/68 (30%), Gaps = 3/68 (4%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
           P+    LF+ GL  + +   +   F  +     +                  FV + +  
Sbjct: 3   PEQLRKLFIGGLSFETTDESLRSHFEQW---GTLTDCVVMRDPNTKRSRGFGFVTYATVE 59

Query: 189 HAATAMDA 196
               AM+A
Sbjct: 60  EVDAAMNA 67

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.0 bits (83), Expect = 5e-04
 Identities = 16/79 (20%), Positives = 28/79 (35%), Gaps = 12/79 (15%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
           G S    P   +S +F+  L +    + +V  IF  +       +      H G      
Sbjct: 4   GSSGKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV------HKG-----F 52

Query: 180 CFVDFVSPAHAATAMDALQ 198
            FV +V+  +A  A+    
Sbjct: 53  AFVQYVNERNARAAVAGED 71

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 35.9 bits (82), Expect = 5e-04
 Identities = 14/73 (19%), Positives = 24/73 (32%), Gaps = 3/73 (4%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFV 185
           P        LFV  +  +    E+   F     Y E++ +        G       V++ 
Sbjct: 1   PQRSVEGWILFVTSIHEEAQEDEIQEKFCD---YGEIKNIHLNLDRRTGFSKGYALVEYE 57

Query: 186 SPAHAATAMDALQ 198
           +   A  A +AL 
Sbjct: 58  THKQALAAKEALN 70

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.4 bits (81), Expect = 7e-04
 Identities = 17/79 (21%), Positives = 26/79 (32%), Gaps = 8/79 (10%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
            G SE    P     L V  +P      ++  +F  F      +++  E           
Sbjct: 2   SGNSESKSTP---KRLHVSNIPFRFRDPDLRQMFGQF-----GKILDVEIIFNERGSKGF 53

Query: 180 CFVDFVSPAHAATAMDALQ 198
            FV F + A A  A + L 
Sbjct: 54  GFVTFENSADADRAREKLH 72

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.1 bits (80), Expect = 7e-04
 Identities = 13/62 (20%), Positives = 23/62 (37%), Gaps = 3/62 (4%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           +FV GL  + +  +V H F  F    +  L+  ++ +         FV F S        
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNR---HRGFGFVTFESEDIVEKVC 58

Query: 195 DA 196
           + 
Sbjct: 59  EI 60

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.5 bits (81), Expect = 7e-04
 Identities = 15/78 (19%), Positives = 28/78 (35%), Gaps = 5/78 (6%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGD-----PLILC 180
           P     +S ++V+GL    +  ++A  F+     K  +   +   H   D     P    
Sbjct: 2   PDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDA 61

Query: 181 FVDFVSPAHAATAMDALQ 198
            V +  P  A  A++   
Sbjct: 62  TVSYEDPPTAKAAVEWFD 79

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.0 bits (80), Expect = 9e-04
 Identities = 12/67 (17%), Positives = 19/67 (28%), Gaps = 8/67 (11%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
              SS +FV     D +  E+   F  +    +V +                FV F    
Sbjct: 2   SSGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAF--------AFVTFADDQ 53

Query: 189 HAATAMD 195
            A +   
Sbjct: 54  IAQSLCG 60

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.2 bits (80), Expect = 0.001
 Identities = 11/79 (13%), Positives = 21/79 (26%), Gaps = 9/79 (11%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
            G S        S  + V GL       ++      F     V ++  + +         
Sbjct: 3   SGSSGSHHKVSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQ--------- 53

Query: 180 CFVDFVSPAHAATAMDALQ 198
             V+F +   A   +    
Sbjct: 54  ALVEFENIDSAKECVTFAA 72

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.4 bits (78), Expect = 0.001
 Identities = 10/65 (15%), Positives = 22/65 (33%), Gaps = 3/65 (4%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TL++   P   ++R +  + +       V L  +             ++D  S   A   
Sbjct: 3   TLWMTNFPPSYTQRNIRDLLQD---INVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYC 59

Query: 194 MDALQ 198
           ++ L 
Sbjct: 60  VEKLN 64

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.0 bits (77), Expect = 0.001
 Identities = 14/64 (21%), Positives = 27/64 (42%), Gaps = 3/64 (4%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           L++ GL    + +++  + +P+      +                 FVDF SP+ A  A+
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGKIVSTK---AILDKTTNKCKGYGFVDFDSPSAAQKAV 57

Query: 195 DALQ 198
            AL+
Sbjct: 58  TALK 61

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.3 bits (78), Expect = 0.002
 Identities = 12/68 (17%), Positives = 21/68 (30%), Gaps = 3/68 (4%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
            +    LF+ GL  + +   + + +  +    +                   FV F S A
Sbjct: 17  KEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCV---VMRDPASKRSRGFGFVTFSSMA 73

Query: 189 HAATAMDA 196
               AM A
Sbjct: 74  EVDAAMAA 81

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.6 bits (76), Expect = 0.002
 Identities = 10/62 (16%), Positives = 24/62 (38%), Gaps = 2/62 (3%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           +F+  L  +   + +   F  F    +   + +      G+     F++F S   +  A+
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMR--DPDTGNSKGYAFINFASFDASDAAI 58

Query: 195 DA 196
           +A
Sbjct: 59  EA 60

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.9 bits (77), Expect = 0.003
 Identities = 13/74 (17%), Positives = 20/74 (27%), Gaps = 3/74 (4%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           G S   LP     T F+  LP D +   +   FR                          
Sbjct: 4   GSSGSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLP---REPSNPERLKGFG 60

Query: 181 FVDFVSPAHAATAM 194
           + +F       +A+
Sbjct: 61  YAEFEDLDSLLSAL 74

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 34.5 bits (78), Expect = 0.003
 Identities = 12/77 (15%), Positives = 27/77 (35%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
            PD    L V  +P+     ++  +F  +   + V++V             + F    S 
Sbjct: 38  EPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSA 97

Query: 188 AHAATAMDALQVQSKVV 204
             A   ++   + +K +
Sbjct: 98  QQAIAGLNGFNILNKRL 114

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	214
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.85
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.84
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.84
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.84
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.83
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.83
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.83
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.83
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.83
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.83
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.83
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.83
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.82
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.82
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.82
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.82
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.81
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.81
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.8
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.8
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.8
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.79
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.79
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.79
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.79
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.79
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.79
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.79
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.79
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.79
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.78
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.78
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.78
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.78
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.78
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.78
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.78
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.78
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.77
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.77
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.77
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.77
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.77
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.77
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.77
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.76
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.76
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.76
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.75
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.75
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.75
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.75
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.74
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.74
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.74
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.73
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.73
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.73
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.72
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.72
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.72
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.72
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.72
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.71
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.71
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.71
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.71
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.7
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.69
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.69
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.68
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.68
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.66
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.65
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.65
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.65
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.63
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.62
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.61
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.58
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.57
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.51
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	99.49
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.45
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.38
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.31
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.27
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	97.29
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.16
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	95.97
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	94.62

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.85  E-value=1.3e-21  Score=138.87  Aligned_cols=79  Identities=23%  Similarity=0.294  Sum_probs=73.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||+++|+++|+++|++||.|++|+|+.++..   |+++|||||+|.++++|++|++.|||+.+.++++++++
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~---g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~   78 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKT---GYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSY   78 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTT---TEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccc---CCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            578999999999999999999999999999999998733   67788999999999999999999999999999999987


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        79 a~   80 (82)
T d1b7fa1          79 AR   80 (82)
T ss_dssp             CC
T ss_pred             cC
Confidence            54

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=2.6e-21  Score=137.90  Aligned_cols=77  Identities=18%  Similarity=0.158  Sum_probs=71.3

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +++++|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||+.|.++++++
T Consensus         7 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~---~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           7 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQS---RRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSS---SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccc---cccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            34789999999999999999999999999999999998743   678899999999999999999999999999998864

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=4.2e-21  Score=144.17  Aligned_cols=80  Identities=19%  Similarity=0.228  Sum_probs=72.7

Q ss_pred             CCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       127 ~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      +||..+++|||+|||.++++++|+++|++||.|++|++..+      +++||||||+|.+.++|..|++.|||+.|.+++
T Consensus         2 ~pp~~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~------~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~   75 (114)
T d2f9da1           2 LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT------PETRGTAYVVYEDIFDAKNACDHLSGFNVCNRY   75 (114)
T ss_dssp             CCTTCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECS------TTTTTEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             cccCCCCEEEEECCCCCCCHHHHHHHHhhcCCeEeeccccc------CCcCCeEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            45667899999999999999999999999999999999876      344569999999999999999999999999999


Q ss_pred             cccccC
Q 028098          207 NQYQSG  212 (214)
Q Consensus       207 ~~~~~~  212 (214)
                      +++...
T Consensus        76 l~V~~a   81 (114)
T d2f9da1          76 LVVLYY   81 (114)
T ss_dssp             CEEEEC
T ss_pred             EEEEEc
Confidence            998754

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=4.5e-21  Score=139.95  Aligned_cols=79  Identities=19%  Similarity=0.197  Sum_probs=73.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .++||||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|+.|++.|||..|.++++++.
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~---~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~   82 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMK---KTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTD   82 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCcceecccccccc---ccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            3789999999999999999999999999999999998743   6788999999999999999999999999999999987


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus        83 ~a   84 (93)
T d1h2vz_          83 WD   84 (93)
T ss_dssp             EE
T ss_pred             Ec
Confidence            64

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=3.9e-21  Score=136.38  Aligned_cols=77  Identities=21%  Similarity=0.288  Sum_probs=72.8

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccCC
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSGS  213 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~~  213 (214)
                      +|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.++++|+.|++.|||+.|.++++++++.+
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~t---g~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~   78 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMIT---RRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccc---cCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            6999999999999999999999999999999998743   6788899999999999999999999999999999998865

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.83  E-value=8.3e-21  Score=135.97  Aligned_cols=78  Identities=19%  Similarity=0.307  Sum_probs=72.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc--ccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV--APNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~--~P~~~  209 (214)
                      +++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..+.+  +|+++
T Consensus         6 ~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~---g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V   82 (85)
T d1b7fa2           6 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLT---GRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSV   82 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeeccccc---ccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEE
Confidence            678999999999999999999999999999999998743   7888999999999999999999999999977  89998


Q ss_pred             ccC
Q 028098          210 QSG  212 (214)
Q Consensus       210 ~~~  212 (214)
                      ++.
T Consensus        83 ~~A   85 (85)
T d1b7fa2          83 RLA   85 (85)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            763

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.1e-20  Score=133.95  Aligned_cols=79  Identities=20%  Similarity=0.337  Sum_probs=73.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||.++++++|+++|++||.|.+|+|+.+...   |+++|||||+|.++++|++|++.|||..|.++++++.+
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~---~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~   78 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKIT---GQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSY   78 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccC---CCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            468999999999999999999999999999999988633   67888999999999999999999999999999999987


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        79 Ak   80 (82)
T d1fxla1          79 AR   80 (82)
T ss_dssp             CC
T ss_pred             ee
Confidence            64

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.83  E-value=9.3e-21  Score=136.80  Aligned_cols=80  Identities=18%  Similarity=0.167  Sum_probs=74.0

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++.+|||+|||.++++++|+++|++||.|++|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.+++++++
T Consensus         6 ~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~t---g~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~   82 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRT---GFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD   82 (88)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---SSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccc---cccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3789999999999999999999999999999999998743   7888899999999999999999999999999999998


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +..
T Consensus        83 ~a~   85 (88)
T d1rk8a_          83 WCF   85 (88)
T ss_dssp             ESE
T ss_pred             Eec
Confidence            753

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=9.9e-21  Score=138.08  Aligned_cols=80  Identities=19%  Similarity=0.225  Sum_probs=74.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||.++|+++|+++|++||.|++|+|+.++.+   |.++|||||+|.+.++|++|++.|||+.|.+++++++
T Consensus         8 ~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~t---g~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~   84 (93)
T d1x5ua1           8 QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVT---GQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVN   84 (93)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSS---CSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccc---cccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3679999999999999999999999999999999998743   6777899999999999999999999999999999998


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        85 ~A~   87 (93)
T d1x5ua1          85 KAS   87 (93)
T ss_dssp             ETT
T ss_pred             EcC
Confidence            764

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.2e-20  Score=136.55  Aligned_cols=81  Identities=20%  Similarity=0.289  Sum_probs=75.1

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +++++|||+|||.++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||+.|.++++++
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t---~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v   82 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTT---GQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNV   82 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSS---CSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccc---cccccceeEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            35789999999999999999999999999999999998743   678889999999999999999999999999999999


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ++.+
T Consensus        83 ~~ak   86 (90)
T d2cq0a1          83 EWAK   86 (90)
T ss_dssp             EESS
T ss_pred             Eeee
Confidence            8765

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.2e-20  Score=135.42  Aligned_cols=77  Identities=21%  Similarity=0.347  Sum_probs=70.4

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc--ccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV--APNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~--~P~~~  209 (214)
                      +++|||+|||+++|+++|+++|++||.|++|+|+.++..   |+++|||||+|.++++|++|++.|||..+.+  .|+++
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~---g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V   82 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVT---GVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITV   82 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccccccc---ccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEE
Confidence            678999999999999999999999999999999998743   6788899999999999999999999999986  66776


Q ss_pred             cc
Q 028098          210 QS  211 (214)
Q Consensus       210 ~~  211 (214)
                      ++
T Consensus        83 ~~   84 (85)
T d1fxla2          83 KF   84 (85)
T ss_dssp             EE
T ss_pred             Ee
Confidence            65

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.83  E-value=9.5e-21  Score=139.29  Aligned_cols=80  Identities=21%  Similarity=0.272  Sum_probs=73.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++||+.|||+.|.++++++.
T Consensus         7 ~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~t---g~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~   83 (99)
T d1whwa_           7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLT---KKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVL   83 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTT---CCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccc---cccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3679999999999999999999999999999999988743   6777899999999999999999999999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        84 ~a~   86 (99)
T d1whwa_          84 PST   86 (99)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            654

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=8.7e-21  Score=135.57  Aligned_cols=79  Identities=16%  Similarity=0.212  Sum_probs=72.4

Q ss_pred             EEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccCC
Q 028098          135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSGS  213 (214)
Q Consensus       135 LfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~~  213 (214)
                      |||+|||+++|+++|+++|++||.|.+|+|+.++.+...+++||||||+|.++++|++|++.|||+.|.++++.+++.+
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~   79 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   79 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            8999999999999999999999999999999987554435678999999999999999999999999999999998753

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=6.9e-21  Score=137.64  Aligned_cols=79  Identities=18%  Similarity=0.272  Sum_probs=73.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ++||||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++.+++
T Consensus         5 ~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~---~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~   81 (89)
T d2cqba1           5 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYET---EKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL   81 (89)
T ss_dssp             CSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSS---CCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CcEEEEeCCCCcCCHHHHHHHHhhCCeEEeccccccccc---ccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            689999999999999999999999999999999998743   67778999999999999999999999999999999987


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        82 a~   83 (89)
T d2cqba1          82 AK   83 (89)
T ss_dssp             CC
T ss_pred             eC
Confidence            64

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=2.5e-20  Score=136.18  Aligned_cols=81  Identities=26%  Similarity=0.368  Sum_probs=73.5

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh-CCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL-QVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L-nG~~l~~~P~~~  209 (214)
                      .+++|||+|||+++++++|+++|++||.|.+|+|+.+...  .|+++|||||+|.+.++|++|++.| ||..|.++++.+
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~--~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V   84 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTG--TGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVL   84 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSS--SCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEecccc--CCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEE
Confidence            4789999999999999999999999999999999887521  2677889999999999999999998 999999999999


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      ++.+
T Consensus        85 ~~A~   88 (94)
T d2cpha1          85 EWAD   88 (94)
T ss_dssp             EECC
T ss_pred             EEcC
Confidence            8765

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=2.8e-20  Score=137.84  Aligned_cols=79  Identities=16%  Similarity=0.286  Sum_probs=73.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||+++++++|+++|++||.|++|+++.++.+   |.+||||||+|.+.++|+.||+.|||+.|.++++++++
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~---g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~   94 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQT---NLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQL   94 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSS---CSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeeccc---CCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            678999999999999999999999999999999998743   77888999999999999999999999999999999987


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      ..
T Consensus        95 a~   96 (102)
T d2cpza1          95 KR   96 (102)
T ss_dssp             CC
T ss_pred             eC
Confidence            64

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.81  E-value=2.3e-20  Score=131.83  Aligned_cols=76  Identities=24%  Similarity=0.203  Sum_probs=70.6

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccCC
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSGS  213 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~~  213 (214)
                      +|||+|||+++++++|+++|++||.|.+|+|+.+++    |+++|||||+|.++++|++|++.|||+.+.+++++++...
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~----g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRS----GRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSC----CCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeec----cccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            799999999999999999999999999999998875    5666799999999999999999999999999999987643

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=2.2e-20  Score=134.05  Aligned_cols=78  Identities=22%  Similarity=0.258  Sum_probs=72.4

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccC
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSG  212 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~  212 (214)
                      .+|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.++++|+.|++.|||+.|.++++.+++.
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~t---g~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A   78 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSAT---GLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA   78 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSS---SCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccc---cccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            47999999999999999999999999999999998743   667779999999999999999999999999999998876


Q ss_pred             C
Q 028098          213 S  213 (214)
Q Consensus       213 ~  213 (214)
                      +
T Consensus        79 ~   79 (85)
T d2u2fa_          79 S   79 (85)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=2.2e-19  Score=132.53  Aligned_cols=77  Identities=16%  Similarity=0.307  Sum_probs=71.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||.++++++|+++|++||.|..++++.+..    ++++|||||+|.+.++|++|++.|||..|.++|+.+.+
T Consensus        18 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~----~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~   93 (101)
T d1x5oa1          18 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSS----GTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAP   93 (101)
T ss_dssp             TTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSS----SCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccc----cccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCC
Confidence            57999999999999999999999999999999988864    56778999999999999999999999999999998865


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        94 ~   94 (101)
T d1x5oa1          94 T   94 (101)
T ss_dssp             S
T ss_pred             C
Confidence            4

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.80  E-value=3.9e-20  Score=143.43  Aligned_cols=79  Identities=16%  Similarity=0.217  Sum_probs=73.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++|+++|+++|++||.|++|+|+.++.+   |+++|||||+|.+.++|+.||+.|||+.|.+++++++
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t---~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~  117 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRET---RQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVA  117 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTT---TEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhcccccccccccccc---ccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            4679999999999999999999999999999999998743   6788899999999999999999999999999999997


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus       118 ~a  119 (139)
T d1u6fa1         118 LA  119 (139)
T ss_dssp             ES
T ss_pred             Ec
Confidence            64

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=4.2e-20  Score=136.76  Aligned_cols=79  Identities=19%  Similarity=0.283  Sum_probs=73.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .+||||+|||+++++++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++|++.|||..|.++++++++
T Consensus         8 ~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~t---g~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~   84 (104)
T d1p1ta_           8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRET---GKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDN   84 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTT---TEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEE
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccccccccccce---eccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            468999999999999999999999999999999998743   67888999999999999999999999999999999987


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      ..
T Consensus        85 a~   86 (104)
T d1p1ta_          85 AA   86 (104)
T ss_dssp             TT
T ss_pred             CC
Confidence            53

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=9.4e-20  Score=130.58  Aligned_cols=79  Identities=11%  Similarity=0.158  Sum_probs=71.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.++++|++|++ +++..|.++++.++
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~t---g~~kG~afV~f~~~~~a~~ai~-~~~~~i~Gr~i~V~   80 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNT---KRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPK   80 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccC---CCcccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEE
Confidence            3579999999999999999999999999999999998743   7888999999999999999996 69999999999887


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ...
T Consensus        81 ~A~   83 (84)
T d1l3ka1          81 RAV   83 (84)
T ss_dssp             ECC
T ss_pred             eee
Confidence            653

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=6.1e-20  Score=132.42  Aligned_cols=78  Identities=23%  Similarity=0.267  Sum_probs=71.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ..+|||+|||+++++++|+++|++||.|..|.++.++..   |+++|||||+|.++++|+.|++.|||+.|.++++++++
T Consensus         5 ~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~---~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~   81 (90)
T d1x5sa1           5 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRET---QRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQ   81 (90)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSS---CSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEE
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccceeecccccc---ccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            678999999999999999999999999999998887633   66778999999999999999999999999999999875


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        82 a   82 (90)
T d1x5sa1          82 A   82 (90)
T ss_dssp             E
T ss_pred             c
Confidence            3

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=2.6e-19  Score=130.69  Aligned_cols=77  Identities=16%  Similarity=0.272  Sum_probs=69.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||+++|+++|+++|++||.|+.+++..+.      .+++||||+|.+.++|+.||+.|||+.|.+++++++
T Consensus        13 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~------~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~   86 (95)
T d1x4aa1          13 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRR------GGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVE   86 (95)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSS------SSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccc------cccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            47899999999999999999999999999999886653      345599999999999999999999999999999998


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +.+
T Consensus        87 ~a~   89 (95)
T d1x4aa1          87 FPR   89 (95)
T ss_dssp             CCC
T ss_pred             ecc
Confidence            864

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=3e-19  Score=129.95  Aligned_cols=77  Identities=18%  Similarity=0.226  Sum_probs=71.2

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++++++|+++|++||.|++|+++.++.+     ++|||||+|.++++|++|++.|||..|.++++++++
T Consensus        11 ~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~-----~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~   85 (93)
T d2cq3a1          11 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG-----SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNN   85 (93)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTT-----TCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccC-----CcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence            679999999999999999999999999999999998743     456999999999999999999999999999999987


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      ..
T Consensus        86 A~   87 (93)
T d2cq3a1          86 AT   87 (93)
T ss_dssp             CC
T ss_pred             cC
Confidence            64

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1.1e-19  Score=131.43  Aligned_cols=78  Identities=21%  Similarity=0.341  Sum_probs=71.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ++||||+|||.++|+++|+++|++||.|++|+|+.++.+.     ++||||+|.+.++|+.|++.|||..|.++++++.+
T Consensus         8 ~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~-----~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~   82 (90)
T d2cqia1           8 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSN-----DPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNW   82 (90)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSS-----CCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCcc-----ceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            6799999999999999999999999999999999987433     34999999999999999999999999999999998


Q ss_pred             CCC
Q 028098          212 GST  214 (214)
Q Consensus       212 ~~~  214 (214)
                      +++
T Consensus        83 a~~   85 (90)
T d2cqia1          83 ATT   85 (90)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            753

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.79  E-value=6.7e-20  Score=129.75  Aligned_cols=78  Identities=10%  Similarity=0.108  Sum_probs=66.5

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccC
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSG  212 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~  212 (214)
                      +||||+|||+++|+++|+++|++||.|..+.++.++..   |+++|||||+|.+.++|++|++.|||+.+.++++.++..
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~---~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a   78 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRF---NTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVS   78 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC----------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeeccccc---ccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            69999999999999999999999999998887776532   667779999999999999999999999999999998764


Q ss_pred             C
Q 028098          213 S  213 (214)
Q Consensus       213 ~  213 (214)
                      +
T Consensus        79 ~   79 (81)
T d2ghpa1          79 N   79 (81)
T ss_dssp             C
T ss_pred             c
Confidence            3

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=5e-20  Score=133.02  Aligned_cols=77  Identities=14%  Similarity=0.153  Sum_probs=70.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++++++|+++|++||.|.+|+|+.++.+     ++|||||+|.+.++|++|++.|||..|.++++.+..
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~-----~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~   82 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-----SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGR   82 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTB-----CCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCC-----CcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            568999999999999999999999999999999998743     455999999999999999999999999999999876


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        83 a~   84 (89)
T d1cvja2          83 FK   84 (89)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=8.3e-20  Score=135.44  Aligned_cols=76  Identities=20%  Similarity=0.302  Sum_probs=70.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .+||||+|||+++++++|+++|++||.|.+|+|+.++.+   |++||||||+|.+.++|++|+ .|||..|.+++++++.
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~t---g~~kG~afV~F~~~e~a~~A~-~l~g~~~~G~~l~V~~   93 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNS---RRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQA   93 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCS---SSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCC---ccccceEEEEECCHHHHHHHH-HHCCCEECCEEEEEEE
Confidence            579999999999999999999999999999999998743   677789999999999999999 5999999999998864

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=7.1e-20  Score=130.19  Aligned_cols=76  Identities=16%  Similarity=0.259  Sum_probs=68.8

Q ss_pred             EEEcCCCCcCCHHHHHHhhcCCCCeEEE-EEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccCC
Q 028098          135 LFVEGLPSDCSRREVAHIFRPFVGYKEV-RLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSGS  213 (214)
Q Consensus       135 LfVgnLp~~~te~eL~~lF~~fG~i~~v-rl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~~  213 (214)
                      |||+|||+++|+++|+++|++||.|.++ +++.++.+   |+++|||||+|.+.++|++|++.|||..+.++++++++..
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~---g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~   77 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDT---GNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAF   77 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTT---CSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccc---cccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEec
Confidence            8999999999999999999999999765 77777643   6777899999999999999999999999999999998764

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.78  E-value=3.4e-19  Score=126.97  Aligned_cols=75  Identities=27%  Similarity=0.464  Sum_probs=68.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec-ccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV-VAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~-~~P~~~~  210 (214)
                      ++||||+|||.++++++|.++|++||.|++|+++.++.    |    ||||+|.+.++|+.|++.|||+.|. +.++++.
T Consensus         8 ~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~~----g----~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~   79 (83)
T d2b0ga1           8 NQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNRH----D----IAFVEFTTELQSNAAKEALQGFKITPTHAMKIT   79 (83)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTTC----S----CEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEE
T ss_pred             CCEEEEECCCCCCCHHHHHhhhccCccEEEeeeecccc----e----eEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEE
Confidence            78999999999999999999999999999999986641    3    9999999999999999999999985 6899998


Q ss_pred             cCCC
Q 028098          211 SGST  214 (214)
Q Consensus       211 ~~~~  214 (214)
                      +.++
T Consensus        80 ~akk   83 (83)
T d2b0ga1          80 FAKK   83 (83)
T ss_dssp             ECCC
T ss_pred             EecC
Confidence            8764

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1.8e-19  Score=133.58  Aligned_cols=77  Identities=18%  Similarity=0.210  Sum_probs=69.8

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++++++|+++|++||.|.+|+|+.++.+   |++||||||+|.+.++|++||+.+|+ .|.++++.+++
T Consensus        10 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t---g~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~   85 (103)
T d2cqda1          10 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQT---GKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNL   85 (103)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSS---CCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEE
T ss_pred             CcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccc---cccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEE
Confidence            568999999999999999999999999999999998743   67778999999999999999999986 68999988865


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      .
T Consensus        86 a   86 (103)
T d2cqda1          86 A   86 (103)
T ss_dssp             S
T ss_pred             c
Confidence            4

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=2.4e-19  Score=130.58  Aligned_cols=80  Identities=16%  Similarity=0.194  Sum_probs=71.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC------CCeecc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ------VQSKVV  204 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln------G~~l~~  204 (214)
                      .+++|||+|||+++|+++|+++|++||.|.+++++.++..   ++++|||||+|.+.++|++|++.||      |..|.+
T Consensus         7 ~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~---~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~g   83 (98)
T d1x4ha1           7 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDT---EHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDG   83 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSS---CCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSS
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHhccccceeeeecccccc---ccccceEEEEEcCHHHHHHHHHHcccccccCCcEECC
Confidence            4789999999999999999999999999999999888733   5667799999999999999999987      678889


Q ss_pred             cccccccCC
Q 028098          205 APNQYQSGS  213 (214)
Q Consensus       205 ~P~~~~~~~  213 (214)
                      +++++++..
T Consensus        84 r~l~v~~a~   92 (98)
T d1x4ha1          84 RQLKVDLAV   92 (98)
T ss_dssp             CEEEEECCC
T ss_pred             EEEEEEECC
Confidence            999888764

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=5.1e-20  Score=130.17  Aligned_cols=75  Identities=15%  Similarity=0.177  Sum_probs=69.2

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ++|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |++||||||+|.++++|++|++ +|++.|.++++.++.
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t---g~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~   75 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLT---KRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKV   75 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCS---SSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCC---CCccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEE
Confidence            58999999999999999999999999999999998743   6778899999999999999996 799999999998764

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=3.1e-19  Score=130.76  Aligned_cols=80  Identities=16%  Similarity=0.230  Sum_probs=70.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeE--------EEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYK--------EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK  202 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~--------~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l  202 (214)
                      .+++|||+|||+++|+++|+++|++||.|.        .+.+..++.+   |+++|||||+|.++++|++|++.|||+.|
T Consensus         7 ~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~---~~~~g~afV~f~~~~~a~~Ai~~l~g~~~   83 (101)
T d2cpea1           7 DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKET---GKPKGDATVSYEDPPTAKAAVEWFDGKDF   83 (101)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTT---CSBCSEEEEEBSSHHHHHHHHHHHTTCEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeecccc---ccccceeeEEecCHHHHHHHHHHhCCCEE
Confidence            478999999999999999999999999885        3455555432   67788999999999999999999999999


Q ss_pred             cccccccccCC
Q 028098          203 VVAPNQYQSGS  213 (214)
Q Consensus       203 ~~~P~~~~~~~  213 (214)
                      .+++++++..+
T Consensus        84 ~gr~i~V~~a~   94 (101)
T d2cpea1          84 QGSKLKVSLAR   94 (101)
T ss_dssp             TTEECEEECSS
T ss_pred             CCEEEEEEEcC
Confidence            99999998875

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=2.2e-19  Score=125.89  Aligned_cols=74  Identities=18%  Similarity=0.221  Sum_probs=67.8

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.++++|++|++ +++..|.++++.++.
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t---~~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~r   74 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPIT---GRSRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPKR   74 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTT---TBCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEECC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCC---CCcCceEEEEECCHHHHHHHHh-cCCCEECCCEEEeeE
Confidence            5999999999999999999999999999999998743   6777899999999999999996 799999999988764

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=4.3e-19  Score=124.83  Aligned_cols=76  Identities=12%  Similarity=0.234  Sum_probs=69.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++|+++|+++|++||.|..++++.++.+   ++++|||||+|.++++|++|+ .|||+.|.++++.++.
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~---~~~~g~afV~f~~~e~~~~al-~~~~~~l~Gr~i~V~~   77 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS---GKKRGFAFVTFDDHDSVDKIV-IQKYHTVNGHNCEVRK   77 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHH-HCSCCEETTEECEEEE
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCC---cccccEEEEEEcCHHHHHHHH-HhCCCEECCEEEEEEE
Confidence            479999999999999999999999999999999998744   678889999999999999998 5899999999998864

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=1.3e-19  Score=131.08  Aligned_cols=78  Identities=18%  Similarity=0.212  Sum_probs=69.8

Q ss_pred             CCEEEEcCCCCcCCHHHH---HHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          132 SSTLFVEGLPSDCSRREV---AHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL---~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      .++|||+|||+++++++|   .++|++||.|.+|+|+.++.+...+.++|||||+|.++++|++|++.|||+.|.+++++
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lk   87 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTLK   87 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEEE
Confidence            578999999999999999   77899999999999999874433344668999999999999999999999999999987


Q ss_pred             c
Q 028098          209 Y  209 (214)
Q Consensus       209 ~  209 (214)
                      .
T Consensus        88 v   88 (89)
T d2cpia1          88 A   88 (89)
T ss_dssp             E
T ss_pred             E
Confidence            5

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=3.3e-20  Score=136.45  Aligned_cols=82  Identities=15%  Similarity=0.172  Sum_probs=74.2

Q ss_pred             CCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       130 ~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      +++++|||+|||.++++++|+++|++||.|..++++.+...   |+++|||||+|.+.++|+.|++.|||..|.++++++
T Consensus        16 ~ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~---g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V   92 (102)
T d2cpxa1          16 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMT---GRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVI   92 (102)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEEC---SSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeeccccc---ccccccceEEeccHHHHHHHHHHhCCCEECCEEEEE
Confidence            35889999999999999999999999999999988877522   567779999999999999999999999999999999


Q ss_pred             ccCCC
Q 028098          210 QSGST  214 (214)
Q Consensus       210 ~~~~~  214 (214)
                      ++++.
T Consensus        93 ~~ak~   97 (102)
T d2cpxa1          93 EFGKN   97 (102)
T ss_dssp             EECCC
T ss_pred             EeCCC
Confidence            88763

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=6.4e-19  Score=130.14  Aligned_cols=81  Identities=20%  Similarity=0.243  Sum_probs=69.9

Q ss_pred             CCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccc
Q 028098          128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPN  207 (214)
Q Consensus       128 p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~  207 (214)
                      |..+.++|||+|||+++|+++|+++|++|| +++++++.++.  ..|+++|||||+|.+.++|++|+ .|||+.|.++++
T Consensus        11 p~~p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~--~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~gr~l   86 (104)
T d1wi8a_          11 PKSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPS--NPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRI   86 (104)
T ss_dssp             CSSSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSS--CTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEEC
T ss_pred             CCCCCCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeec--cCCCcceeeeEEECCHHHHHHHH-HcCCCEECCEEE
Confidence            344578999999999999999999999998 88888888762  12678889999999999998777 599999999999


Q ss_pred             ccccC
Q 028098          208 QYQSG  212 (214)
Q Consensus       208 ~~~~~  212 (214)
                      +++..
T Consensus        87 ~V~~a   91 (104)
T d1wi8a_          87 RVDVA   91 (104)
T ss_dssp             EEEEC
T ss_pred             EEEEC
Confidence            98754

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=2.1e-19  Score=124.44  Aligned_cols=71  Identities=20%  Similarity=0.353  Sum_probs=66.1

Q ss_pred             EEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       135 LfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      |||+|||.++|+++|+++|++||.|..++++.++.+   ++++|||||+|.++++|++|++.|||..+.+++++
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~---~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTT---NKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSS---CSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhcccccccccccccc---ccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            899999999999999999999999999999988743   56778999999999999999999999999998875

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=6.9e-19  Score=126.43  Aligned_cols=76  Identities=14%  Similarity=0.134  Sum_probs=68.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCee-cccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSK-VVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l-~~~P~~~~  210 (214)
                      +++|||+|||.++++++|+++|++||.|.++++...+.       ++||||+|.+.++|.+|+..|||+.| .++++++.
T Consensus        10 s~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~~~-------~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~   82 (88)
T d2adca2          10 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD-------RKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVS   82 (88)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSS-------TTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeecc-------cceeEEEECCHHHHHHHHHhccCCEecCCCEEEEE
Confidence            78999999999999999999999999999888776643       23999999999999999999999998 48999998


Q ss_pred             cCCC
Q 028098          211 SGST  214 (214)
Q Consensus       211 ~~~~  214 (214)
                      +.++
T Consensus        83 ~sk~   86 (88)
T d2adca2          83 FSKS   86 (88)
T ss_dssp             ECSS
T ss_pred             eCCC
Confidence            8764

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.77  E-value=2.7e-19  Score=124.36  Aligned_cols=74  Identities=18%  Similarity=0.259  Sum_probs=68.0

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +|||+|||+++|+++|+++|++||.|..+.++.++.+   |++++||||+|.+.++|++|++ |||+.|.++++.++.
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~---~~~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~V~~   74 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTT---NRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKK   74 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTC---TTSCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCEEEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccc---cccCceeEEEECCHHHHHHHHh-cCCCEECCeEEEEEE
Confidence            5999999999999999999999999999999888743   5677799999999999999996 999999999999875

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=7e-19  Score=127.77  Aligned_cols=77  Identities=18%  Similarity=0.166  Sum_probs=67.4

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.++++|++||+.  .+.|.++++.++
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t---g~srG~aFV~f~~~~~a~~al~~--~~~l~Gr~i~v~   81 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKT---GHSKGFGFVRFTEYETQVKVMSQ--RHMIDGRWCDCK   81 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSS---CSEEEEEEEEESSHHHHHHHHHS--CEEETTEEEEEE
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCC---cccCCEEEEEECCHHHHHHHHhc--CCccCCEEeEEE
Confidence            4789999999999999999999999999999999999743   77888999999999999999985  346777777665


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus        82 ~a   83 (90)
T d2cqga1          82 LP   83 (90)
T ss_dssp             CC
T ss_pred             eC
Confidence            54

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=6e-19  Score=129.40  Aligned_cols=73  Identities=22%  Similarity=0.342  Sum_probs=69.8

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||.++++++|+++|++||.|++|+|+.++     |    ||||+|.++++|++|++.|||..|.++++++.+
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~k-----g----~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~   88 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK-----G----YSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYW   88 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEecc-----e----EEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            6799999999999999999999999999999999875     4    999999999999999999999999999999998


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      ++
T Consensus        89 ak   90 (96)
T d1x4ga1          89 GK   90 (96)
T ss_dssp             CC
T ss_pred             cC
Confidence            86

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=8.7e-19  Score=125.69  Aligned_cols=76  Identities=12%  Similarity=0.068  Sum_probs=70.3

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||.++|+++|+++|++||.|.+|+|+.+++    |++||||||+|.++++|++||+ ++|..+.++++++++
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~----~~~kG~afV~f~~~e~a~~al~-~~~~~~~g~~l~v~~   80 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH----KAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILF   80 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT----CCEEEEEEEEESCHHHHHHHHT-CCCCEETTEECEEEE
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeecc----CCcceEEEEEEcCHHHHHHHHH-HCCCEECCEEEEEEE
Confidence            57999999999999999999999999999999988764    6778899999999999999995 799999999999986


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      -
T Consensus        81 ~   81 (85)
T d1zh5a2          81 K   81 (85)
T ss_dssp             G
T ss_pred             c
Confidence            3

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=3e-19  Score=128.24  Aligned_cols=80  Identities=9%  Similarity=0.094  Sum_probs=68.6

Q ss_pred             CCCEEEEcCCCCcCC-HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCS-RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~t-e~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..++|||+|||++++ +++|+++|++||.|.+|+|+.++.  ..|+++|||||+|.+.++|++|++ |||+.|.++++++
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~--~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~l~V   79 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQK--EHSFNNCCAFMVFENKDSAERALQ-MNRSLLGNREISV   79 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC-----CCCEEEEEEESSHHHHHHHGG-GTTEEETTEEEEE
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccC--CccccceeeeEEECCHHHHHHHHh-cCCCEECCEEEEE
Confidence            368999999999986 556999999999999999987641  126778899999999999999996 9999999999999


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      +...
T Consensus        80 ~~a~   83 (86)
T d2ghpa3          80 SLAD   83 (86)
T ss_dssp             EECC
T ss_pred             EEcC
Confidence            8764

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=7.3e-19  Score=130.77  Aligned_cols=78  Identities=15%  Similarity=0.177  Sum_probs=70.2

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++++++|+++|++||.|.+|+|+.++.+   +.+||||||+|.+.++|++|++ ++|..|.++++.++.
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~---~~~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i~V~~   95 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPAS---KRSRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVVEPKR   95 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTT---SSCCSEEEEECSSHHHHHHHHT-SCSEEETTEEEEEEC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccC---CCccCeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEE
Confidence            479999999999999999999999999999999998743   5677799999999999999995 799999999998876


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      ..
T Consensus        96 a~   97 (103)
T d1x4ba1          96 AV   97 (103)
T ss_dssp             CS
T ss_pred             Cc
Confidence            53

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=4.4e-19  Score=128.47  Aligned_cols=77  Identities=19%  Similarity=0.210  Sum_probs=68.9

Q ss_pred             CCEEEEcCCCCcCCHHHHH----HhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccc
Q 028098          132 SSTLFVEGLPSDCSRREVA----HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPN  207 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~----~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~  207 (214)
                      ++||||+|||++++++||+    ++|++||.|.+|++...      ++++|||||+|.+.++|++|++.|||..+.++++
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~------~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l   76 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS------LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPM   76 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH------HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeee------ccCCCceEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            7899999999999999986    46899999999988654      3455699999999999999999999999999999


Q ss_pred             ccccCCC
Q 028098          208 QYQSGST  214 (214)
Q Consensus       208 ~~~~~~~  214 (214)
                      ++.++++
T Consensus        77 ~v~~ak~   83 (91)
T d1nu4a_          77 RIQYAKT   83 (91)
T ss_dssp             EEEECSS
T ss_pred             EEEEeCC
Confidence            9998764

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=4.8e-19  Score=131.64  Aligned_cols=72  Identities=19%  Similarity=0.253  Sum_probs=66.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||+++++++|+++|++||.|..|+|...+     |    ||||+|.+.++|++|++.|||..|.++++.+.+
T Consensus        10 ~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~~k-----g----~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~   80 (111)
T d1whxa_          10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGG-----I----TAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEW   80 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSSS-----S----CEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHhhhhccCCccEEEeeccC-----c----eEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEE
Confidence            6799999999999999999999999999999885442     3    999999999999999999999999999999876


Q ss_pred             C
Q 028098          212 G  212 (214)
Q Consensus       212 ~  212 (214)
                      +
T Consensus        81 a   81 (111)
T d1whxa_          81 A   81 (111)
T ss_dssp             E
T ss_pred             C
Confidence            5

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.75  E-value=9.4e-20  Score=132.53  Aligned_cols=79  Identities=16%  Similarity=0.210  Sum_probs=71.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ...+|||+|||+++++++|+++|++||.|..++|+.++.    |++||||||+|.+.++|++||+ |||..|.++++++.
T Consensus        12 ~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~----g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V~   86 (91)
T d1fjeb1          12 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRT----GTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLE   86 (91)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEE----ETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEE
T ss_pred             CCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCC----CCccEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEEE
Confidence            467999999999999999999999999999998876654    5667799999999999999996 99999999999998


Q ss_pred             cCCC
Q 028098          211 SGST  214 (214)
Q Consensus       211 ~~~~  214 (214)
                      ..++
T Consensus        87 ~ak~   90 (91)
T d1fjeb1          87 KPKG   90 (91)
T ss_dssp             CCCC
T ss_pred             ecCC
Confidence            7753

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=1.6e-18  Score=124.51  Aligned_cols=73  Identities=22%  Similarity=0.270  Sum_probs=68.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||.++++++|+++|++||.|.+|++..++     |    ||||+|.+.++|++|++.|||..|.++++++++
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~k-----~----~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~   78 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK-----G----FGFIRLETRTLAEIAKVELDNMPLRGKQLRVRF   78 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTT-----T----EEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeeccc-----c----eEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            5689999999999999999999999999999998764     4    999999999999999999999999999999987


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        79 A~   80 (86)
T d2cpja1          79 AC   80 (86)
T ss_dssp             SS
T ss_pred             CC
Confidence            64

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=5.1e-19  Score=124.51  Aligned_cols=74  Identities=16%  Similarity=0.317  Sum_probs=66.3

Q ss_pred             EEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       134 tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +|||+|||+++|+++|+++|++||.|.+|+|+.++.+   |+++|||||+|.+.++|++||+ ++++.|.++.+.++.
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t---~~~rG~~FV~f~~~~~a~~al~-~~~~~i~g~~i~vk~   74 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKT---NKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKV   74 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTT---CCTTCCEEEEESSSHHHHHHTT-CSSCCBTTBCCEEEC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccc---cccccEEEEEECCHHHHHHHHh-hCCCEECCEEeEEEE
Confidence            6999999999999999999999999999999999743   6778899999999999999996 477788888877654

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=1.3e-18  Score=124.22  Aligned_cols=77  Identities=22%  Similarity=0.194  Sum_probs=68.1

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEE-EEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~-vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .++|||+|||++++++||+++|+.|+.+.. +.+..+++    |+++|+|||+|.++++|++|++.|||+.|.++++++.
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~----g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~   84 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEK----GMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLV   84 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSS----SCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCC----CCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEE
Confidence            568999999999999999999999999976 45555543    6778899999999999999999999999999999986


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      -|
T Consensus        85 l~   86 (86)
T d2cqpa1          85 LG   86 (86)
T ss_dssp             ES
T ss_pred             EC
Confidence            43

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=3e-18  Score=121.03  Aligned_cols=72  Identities=17%  Similarity=0.196  Sum_probs=66.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .++||||+||+  +|+++|+++|++||.|.+|++..++     |    ||||+|.+.++|+.|++.|||..|.+++++++
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~~-----~----~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~   72 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPR-----N----CAFVTYEKMESADQAVAELNGTQVESVQLKVN   72 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETTT-----T----EEEEECSSHHHHHHHHHHHTTCBCSSCBCEEE
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhccCccceeeeccCC-----C----EEEEEEcccHHHHHHHHHhCCCEECCEEEEEE
Confidence            47899999996  8999999999999999999997654     4    99999999999999999999999999999999


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +++
T Consensus        73 ~a~   75 (79)
T d2bz2a1          73 IAR   75 (79)
T ss_dssp             ECC
T ss_pred             Eec
Confidence            875

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=2.3e-18  Score=127.65  Aligned_cols=74  Identities=16%  Similarity=0.210  Sum_probs=68.1

Q ss_pred             CCEEEEcCCCC-cCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~-~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +++|||+|||+ .+|+++|+++|++||.|++|+|+.++.    |    ||||+|++.++|++|++.|||..|.++++++.
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~k----g----~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~   73 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKK----E----NALVQMADGNQAQLAMSHLNGHKLHGKPIRIT   73 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTTS----C----CEEEEESCHHHHHHHHHHHTTCBCSSSBCEEE
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEeccc----c----eEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            68999999965 599999999999999999999998752    4    99999999999999999999999999999998


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +++
T Consensus        74 ~s~   76 (109)
T d2adca1          74 LSK   76 (109)
T ss_dssp             CCS
T ss_pred             ECC
Confidence            764

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=2.5e-18  Score=123.58  Aligned_cols=69  Identities=17%  Similarity=0.177  Sum_probs=64.2

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      ++|||+|||+++++++|+++|++||.|.+|++..+      |    ||||+|.+.++|++||+.|||..|.++++++..
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~------g----~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~   69 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD------G----TGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAY   69 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT------S----EEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCB
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhccccccccccc------c----eeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeE
Confidence            47999999999999999999999999999998765      4    999999999999999999999999999987654

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=1.2e-17  Score=122.18  Aligned_cols=73  Identities=16%  Similarity=0.211  Sum_probs=66.8

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc--ccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV--APNQY  209 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~--~P~~~  209 (214)
                      +++|||+|||+++++++|+++|++||.|..|++..++     +    ||||+|.+.++|+.|++.|||..|.+  .++++
T Consensus        17 s~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~~-----~----~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v   87 (97)
T d1whya_          17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGD-----S----FAYIQYESLDAAQAACAKMRGFPLGGPDRRLRV   87 (97)
T ss_dssp             CSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSS-----C----CEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEE
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeeccc-----c----EEEeccCCHHHHHHHHHHhCCCEeCCCceEEEE
Confidence            7899999999999999999999999999999998764     3    99999999999999999999999976  47888


Q ss_pred             ccCC
Q 028098          210 QSGS  213 (214)
Q Consensus       210 ~~~~  213 (214)
                      .+.+
T Consensus        88 ~~ak   91 (97)
T d1whya_          88 DFAK   91 (97)
T ss_dssp             EECC
T ss_pred             EeCC
Confidence            7654

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.72  E-value=3.3e-18  Score=120.02  Aligned_cols=73  Identities=14%  Similarity=0.158  Sum_probs=66.4

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +||||+|||+++++++|+++|++||.|..|+|+.++.++     ++||||+|.++++|++|+ .|||..|.++++.+..
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~-----~~~afV~F~~~~~a~~Al-~~~~~~i~g~~i~V~~   73 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKN-----FRFARIEFARYDGALAAI-TKTHKVVGQNEIIVSH   73 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSS-----SEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeecccc-----ceEEEEEEcchHHhHHHH-HhcCcEECCEEEEEEE
Confidence            589999999999999999999999999999999987432     349999999999999999 5899999999998764

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1.8e-17  Score=119.01  Aligned_cols=74  Identities=18%  Similarity=0.253  Sum_probs=67.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh--CCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL--QVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L--nG~~l~~~P~~  208 (214)
                      ++++|||+|||.++++++|+++|++||.|.++++..++     |    ||||+|.+.++|++|++.|  ++..+.++|++
T Consensus         7 Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~~-----~----~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~   77 (88)
T d2cq1a1           7 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGK-----N----QAFLELATEEAAITMVNYYSAVTPHLRNQPIY   77 (88)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHHHSCCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcccccccccccccc-----e----EEEEEeCCHHHHHHHHHHHccCCCccCCCEEE
Confidence            48999999999999999999999999999999998664     3    9999999999999999865  67899999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +++.+
T Consensus        78 v~~sk   82 (88)
T d2cq1a1          78 IQYSN   82 (88)
T ss_dssp             EEECS
T ss_pred             EEECC
Confidence            98765

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1.4e-17  Score=123.17  Aligned_cols=77  Identities=18%  Similarity=0.195  Sum_probs=66.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ...+|||+|||+++|++||+++|+++|.+..+.++.+...   +++||||||+|.++++|++|++ ||+..|.++++.+.
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~---~~~kG~afV~F~~~e~a~~a~~-~~~~~i~gR~i~V~   89 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQ---GRSTGEAFVQFASQEIAEKALK-KHKERIGHRYIEIF   89 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSS---SCBCSEEEEEESSHHHHHHHHT-TTTCCSSSSCCEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCC---CCcceEEEEEeCCHHHHHHHHh-hCCCEEcceEEEEE
Confidence            3668999999999999999999999999988666555422   5677899999999999999995 89999999998875


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      .
T Consensus        90 ~   90 (104)
T d1wg5a_          90 K   90 (104)
T ss_dssp             E
T ss_pred             E
Confidence            3

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.72  E-value=2.2e-17  Score=121.41  Aligned_cols=71  Identities=14%  Similarity=0.182  Sum_probs=65.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ...+|||+|||+++++++|+++|++||.|++|+|..+      |    ||||+|.+.++|++||+.|||..+.++.+++.
T Consensus        14 ~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~~------g----~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~   83 (98)
T d1wg4a_          14 SDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQKD------G----MGMVEYLRKEDMEYALRKLDDTKFRSHEGETS   83 (98)
T ss_dssp             CSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEETT------T----EEEEEESSHHHHHHHHHHHSSEEEECTTSCEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhhccccccccccc------c----eEEEEECCHHHHHHHHHHhCCCEeCCeEEEEE
Confidence            3679999999999999999999999999999998643      4    99999999999999999999999999998875


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      .
T Consensus        84 ~   84 (98)
T d1wg4a_          84 Y   84 (98)
T ss_dssp             E
T ss_pred             E
Confidence            4

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=4e-18  Score=124.36  Aligned_cols=80  Identities=18%  Similarity=0.135  Sum_probs=69.2

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCC-eEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC--Ceecccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVG-YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV--QSKVVAPNQ  208 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~-i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG--~~l~~~P~~  208 (214)
                      |++|||+|||.++++++|+++|++||. |.+|+|+.+...  .|+++|||||+|.++++|+.|++.|++  ..+.+++++
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~--~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~   78 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAAD--KMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIA   78 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCT--TTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccc--cccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEE
Confidence            578999999999999999999999995 899999887521  256777999999999999999999965  556799999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +++..
T Consensus        79 V~~A~   83 (96)
T d2disa1          79 VDWAE   83 (96)
T ss_dssp             EEESC
T ss_pred             EEEcC
Confidence            98764

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=7.4e-18  Score=124.41  Aligned_cols=77  Identities=17%  Similarity=0.186  Sum_probs=68.1

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ...+|||+|||+++|++||+++|+.|+ ++.|+++.+..    |+++|||||+|.++++|++|++ ||+..|.++++++.
T Consensus        14 ~~~~v~v~nLp~~~te~dl~~~F~~~~-~~~v~~~~~~~----g~~~G~afVeF~~~~~a~~Al~-~~~~~i~gR~I~V~   87 (102)
T d1weza_          14 TGHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPD----GRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELF   87 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCSCC-CSEEEEEESSS----SCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHhccC-cceeeeEEecC----CcceEEEEEEECCHHHHHHHHH-cCCCEECCEEEEEE
Confidence            367999999999999999999999997 56788888764    5677899999999999999986 89999999999987


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      ..+
T Consensus        88 ~s~   90 (102)
T d1weza_          88 LNS   90 (102)
T ss_dssp             EEC
T ss_pred             EcC
Confidence            644

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=8.9e-18  Score=123.56  Aligned_cols=73  Identities=16%  Similarity=0.226  Sum_probs=65.3

Q ss_pred             CCCCEEEEcCCC-CcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          130 DASSTLFVEGLP-SDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       130 ~~s~tLfVgnLp-~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      ..+++|||+||| ..+++++|+++|++||.|++|+|..       |    ||||+|++.++|++|++.|||+.|.+++++
T Consensus        13 ~~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~r-------g----~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~   81 (98)
T d1wf2a_          13 SMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHK-------G----FAFVQYVNERNARAAVAGEDGRMIAGQVLD   81 (98)
T ss_dssp             SCCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEET-------E----EEEEEESSHHHHHHHHHTTTTCEETTEECE
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEeC-------C----eEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            346789999997 5788999999999999999999831       3    999999999999999999999999999999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +.+.+
T Consensus        82 V~~a~   86 (98)
T d1wf2a_          82 INLAA   86 (98)
T ss_dssp             EEETT
T ss_pred             EEECC
Confidence            87653

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.71  E-value=3.1e-18  Score=125.06  Aligned_cols=75  Identities=17%  Similarity=0.225  Sum_probs=66.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++++|||+|||+++|+++|+++|++||.|..++.   .     |++++||||+|.+.++|++|++.|||..|.++++++.
T Consensus        15 ~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~---~-----~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~   86 (96)
T d1fjca_          15 AARTLLAKNLSFNITEDELKEVFEDALEIRLVSQ---D-----GKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLY   86 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEE---T-----TEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcccceeeee---c-----CccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            4789999999999999999999999998766642   1     5667799999999999999999999999999999998


Q ss_pred             cCC
Q 028098          211 SGS  213 (214)
Q Consensus       211 ~~~  213 (214)
                      +..
T Consensus        87 ~a~   89 (96)
T d1fjca_          87 YTG   89 (96)
T ss_dssp             ECS
T ss_pred             EeC
Confidence            754

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=3.1e-18  Score=121.36  Aligned_cols=72  Identities=15%  Similarity=0.201  Sum_probs=65.2

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCC-eeccccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQ-SKVVAPNQYQS  211 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~-~l~~~P~~~~~  211 (214)
                      ++|||+|||.++|+++|+++|++||.|..+++...+     |    ||||+|.++++|++|++.|||. .+.++++.+++
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~r-----g----~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~   72 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKS-----G----YAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDY   72 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEET-----T----EEEECCSCHHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEeccc-----c----eEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEE
Confidence            579999999999999999999999999887776654     4    9999999999999999999995 69999999987


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      ..
T Consensus        73 a~   74 (80)
T d2cqha1          73 SV   74 (80)
T ss_dssp             CC
T ss_pred             cC
Confidence            54

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=1.7e-17  Score=118.44  Aligned_cols=73  Identities=21%  Similarity=0.188  Sum_probs=66.8

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      .++|||+|||+++++++|+++|++||.|..+++...+     |    ||||+|.++++|+.|++.|||+.|.++++++++
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~~r-----g----~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~   78 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIR-----D----YAFVHFSNREDAVEAMKALNGKVLDGSPIEVTL   78 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECS-----S----EEEEEESSHHHHHHHHHHHSSEEETTEEEEEEC
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEcccc-----E----EEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence            6799999999999999999999999999888774433     3    999999999999999999999999999999988


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      ++
T Consensus        79 ak   80 (86)
T d2cpda1          79 AK   80 (86)
T ss_dssp             CC
T ss_pred             cc
Confidence            64

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=8.5e-17  Score=119.01  Aligned_cols=74  Identities=12%  Similarity=0.101  Sum_probs=66.7

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh--CCCeecccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL--QVQSKVVAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L--nG~~l~~~P~~  208 (214)
                      ++++|||+|||.+++|++|.++|++||.|++|++...+     |    ||||+|++.++|+.|++.|  ++..+.+++++
T Consensus        14 ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~k-----~----~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~   84 (104)
T d1wexa_          14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFK-----R----QALVEFENIDSAKECVTFAADVPVYIAGQQAF   84 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHHHSCCBSSSSBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEecc-----e----eEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEE
Confidence            38899999999999999999999999999999997654     4    9999999999999999987  56678899999


Q ss_pred             cccCC
Q 028098          209 YQSGS  213 (214)
Q Consensus       209 ~~~~~  213 (214)
                      +++.+
T Consensus        85 v~~s~   89 (104)
T d1wexa_          85 FNYST   89 (104)
T ss_dssp             EEECS
T ss_pred             EEEcC
Confidence            98764

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=1.4e-17  Score=119.94  Aligned_cols=72  Identities=21%  Similarity=0.213  Sum_probs=62.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQS  211 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~  211 (214)
                      +++|||+|||++++++||+++|++|| ++.+.+..         .|+||||+|.+.++|++|++.|||+.|.++++.++.
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~~---------~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~   74 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVDR---------NKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQL   74 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEEG---------GGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcC-ceeeeeec---------cCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            67999999999999999999999999 33444432         234999999999999999999999999999999887


Q ss_pred             CC
Q 028098          212 GS  213 (214)
Q Consensus       212 ~~  213 (214)
                      .+
T Consensus        75 a~   76 (88)
T d1wg1a_          75 QP   76 (88)
T ss_dssp             CC
T ss_pred             cC
Confidence            54

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.68  E-value=6e-17  Score=113.43  Aligned_cols=70  Identities=19%  Similarity=0.259  Sum_probs=61.8

Q ss_pred             EEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccccCCC
Q 028098          135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQSGST  214 (214)
Q Consensus       135 LfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~~~~~  214 (214)
                      |||+|||+++++++|+++|++|| +..+++...         +|||||+|.+.++|++|++.|||+.+.+++++++..++
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~~~---------~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~   70 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDKY---------KGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPT   70 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEETT---------TTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCS
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeeccc---------ceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCC
Confidence            79999999999999999999998 556655332         23999999999999999999999999999999987653

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=2.4e-17  Score=122.71  Aligned_cols=74  Identities=16%  Similarity=0.167  Sum_probs=64.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec--ccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV--VAPNQ  208 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~--~~P~~  208 (214)
                      +..+|||+|||+++|+++|+++|++||.|++|+|..++.       +|||||+|.++++|+.|++.|||..|.  +.+++
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~~-------~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~   78 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNN-------QFQALLQYADPVSAQHAKLSLDGQNIYNACCTLR   78 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEETT-------EEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCE
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeCC-------CCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEE
Confidence            367899999999999999999999999999999988752       349999999999999999999999985  45565


Q ss_pred             ccc
Q 028098          209 YQS  211 (214)
Q Consensus       209 ~~~  211 (214)
                      +++
T Consensus        79 v~~   81 (108)
T d2adba1          79 IDF   81 (108)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            543

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=3.9e-17  Score=120.30  Aligned_cols=75  Identities=12%  Similarity=0.143  Sum_probs=65.5

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEE-EEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~-vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..+|||+|||+++|+++|+++|+.||.+.. +.++.++.    |+++|||||+|.+.++|++||+ |||..|.++++.+.
T Consensus         8 ~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~----g~~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~   82 (103)
T d2cpya1           8 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNN----GQGLGQALVQFKNEDDARKSER-LHRKKLNGREAFVH   82 (103)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTT----SSCSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEE
T ss_pred             ceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCC----CCcCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEE
Confidence            578999999999999999999999999876 45545543    6677799999999999999996 99999999999875


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      .
T Consensus        83 ~   83 (103)
T d2cpya1          83 V   83 (103)
T ss_dssp             E
T ss_pred             E
Confidence            4

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=5.1e-17  Score=121.83  Aligned_cols=81  Identities=19%  Similarity=0.220  Sum_probs=68.1

Q ss_pred             CCCCCCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       127 ~p~~~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      .|.....+|||+|||+++|+++|+++|+.||.+..+.++.+...   |.++|+|||+|.+.++|++|++ |||..|.+++
T Consensus        13 ~~~~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~---g~~~G~afVeF~~~e~a~~al~-~~~~~i~gR~   88 (112)
T d1wela1          13 SPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPN---GKATGEGFVEFRNEADYKAALC-RHKQYMGNRF   88 (112)
T ss_dssp             SCCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTT---SSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSC
T ss_pred             CCCCCCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcc---cceeeEEEEEECCHHHHHHHHH-cCCCcCCCEE
Confidence            34445789999999999999999999999999876555444322   7788899999999999999995 9999999999


Q ss_pred             ccccc
Q 028098          207 NQYQS  211 (214)
Q Consensus       207 ~~~~~  211 (214)
                      +.+..
T Consensus        89 i~V~~   93 (112)
T d1wela1          89 IQVHP   93 (112)
T ss_dssp             BEEEE
T ss_pred             EEEEE
Confidence            98753

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=3.9e-17  Score=117.41  Aligned_cols=72  Identities=17%  Similarity=0.160  Sum_probs=63.6

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .+++|||+|||+++|+++|+++|++||.|.+|++..+.        ++||||+|.+.++|++|+.  +++.|.++++.+.
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~~--------~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~   73 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPF--------RAFAFVTFADDQIAQSLCG--EDLIIKGISVHIS   73 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSC--------CSCCEEECSCHHHHHHTTT--CEEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeecc--------CceEEEEECCHHHHHHHHh--CCCEECCEEeEEE
Confidence            37899999999999999999999999999999875442        3399999999999999985  8889999999887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus        74 ~a   75 (88)
T d1wf0a_          74 NA   75 (88)
T ss_dssp             CC
T ss_pred             eC
Confidence            64

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.65  E-value=1.2e-16  Score=115.45  Aligned_cols=74  Identities=12%  Similarity=0.185  Sum_probs=67.2

Q ss_pred             CCCEEEEcCCCCc-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHh--CCCeeccccc
Q 028098          131 ASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL--QVQSKVVAPN  207 (214)
Q Consensus       131 ~s~tLfVgnLp~~-~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~L--nG~~l~~~P~  207 (214)
                      ++++|||+|||.. +|++||.+||++||.|.+|+++.++     +    +|||+|++.++|+.|++.|  ++..+.++|+
T Consensus         7 ~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k-----~----~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l   77 (89)
T d1x4da1           7 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI-----N----EAFIEMATTEDAQAAVDYYTTTPALVFGKPV   77 (89)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS-----S----CEEEEESSHHHHHHHHHHHHHSCCEETTEEC
T ss_pred             CCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccc-----e----EEEEEEcchhhHHHHHHHHhhCCCccCCceE
Confidence            4889999999986 7899999999999999999998775     3    9999999999999999966  7889999999


Q ss_pred             ccccCC
Q 028098          208 QYQSGS  213 (214)
Q Consensus       208 ~~~~~~  213 (214)
                      ++++.+
T Consensus        78 ~V~~s~   83 (89)
T d1x4da1          78 RVHLSQ   83 (89)
T ss_dssp             EEEEEC
T ss_pred             EEEECC
Confidence            998754

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.63  E-value=5e-16  Score=114.13  Aligned_cols=74  Identities=14%  Similarity=0.167  Sum_probs=66.6

Q ss_pred             CCCCEEEEcCCCCc-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHH--HhCCCeecccc
Q 028098          130 DASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMD--ALQVQSKVVAP  206 (214)
Q Consensus       130 ~~s~tLfVgnLp~~-~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~--~LnG~~l~~~P  206 (214)
                      ..+++|||+|||.+ +|+++|.++|++||.|.+|+++.++     |    ||||+|.+.++|+.|++  .+++..+.+++
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~k-----~----~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~   86 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMK-----S----QAFIEMETREDAMAMVDHCLKKALWFQGRC   86 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTT-----T----EEEEECSSHHHHHHHHHHHHHSCCCSSSSC
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeecC-----C----cEEEEecchHHHHHHHHHHhcCCceECCEE
Confidence            35789999999985 8999999999999999999998765     4    99999999999999998  58899999999


Q ss_pred             cccccC
Q 028098          207 NQYQSG  212 (214)
Q Consensus       207 ~~~~~~  212 (214)
                      ++++..
T Consensus        87 l~V~~s   92 (99)
T d1x4fa1          87 VKVDLS   92 (99)
T ss_dssp             CEEEEE
T ss_pred             EEEEEc
Confidence            998754

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=3.3e-18  Score=123.30  Aligned_cols=79  Identities=11%  Similarity=0.111  Sum_probs=65.9

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCC--CCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE--SRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k--~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ++|||+|||.++||++|+++|++||.+..+.+....  .....+++||||||+|.++++|++|++ |||+.+.+++++++
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIR   80 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSSSCCCCB
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECCEEEEEC
Confidence            589999999999999999999999998777655332  011125667799999999999999995 99999999999997


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      ..
T Consensus        81 r~   82 (90)
T d1u2fa_          81 RP   82 (90)
T ss_dssp             CT
T ss_pred             CC
Confidence            54

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.61  E-value=1.7e-16  Score=118.00  Aligned_cols=73  Identities=19%  Similarity=0.138  Sum_probs=65.9

Q ss_pred             CCEEEEcCCCCcC-C----HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccc
Q 028098          132 SSTLFVEGLPSDC-S----RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAP  206 (214)
Q Consensus       132 s~tLfVgnLp~~~-t----e~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P  206 (214)
                      +++|||+||+.++ +    +++|+++|++||.|+++++...+     +    ||||+|.+.++|++|++.|||+.|.+++
T Consensus         5 ~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k~~-----~----~afV~f~~~~~A~~Ai~~lng~~~~g~~   75 (104)
T d1weya_           5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSF-----K----RVRINFSNPLSAADARLRLHKTEFLGKE   75 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTT-----T----EEEEECSSTTHHHHHHHTSTTSEETTEE
T ss_pred             CceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEecCC-----C----EEEEEECCHHHHHHHHHHhcccccCCCE
Confidence            7899999999886 3    36799999999999999998654     3    9999999999999999999999999999


Q ss_pred             cccccCC
Q 028098          207 NQYQSGS  213 (214)
Q Consensus       207 ~~~~~~~  213 (214)
                      +++.+++
T Consensus        76 l~v~~a~   82 (104)
T d1weya_          76 MKLYFAQ   82 (104)
T ss_dssp             CEEECCC
T ss_pred             eEEeecc
Confidence            9998875

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=1.7e-15  Score=120.21  Aligned_cols=78  Identities=12%  Similarity=0.220  Sum_probs=70.9

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      ..++|||+|||+++|+++|+++|+.||.|..|.++.++..   |+++|||||+|.++++|++|++ +++..+.++++.+.
T Consensus        96 ~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~---~~~~g~~fV~f~~~e~A~~Al~-~~~~~~~G~~i~V~  171 (183)
T d1u1qa_          96 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS---GKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVR  171 (183)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESCHHHHHHHHT-SSCEEETTEEEEEE
T ss_pred             ccceeEEccCCCcCCHHHHhhhhccCCceeeeeeeccccc---CccceeEEEEECCHHHHHHHHH-hCCCeECCEEEEEE
Confidence            4689999999999999999999999999999999998743   6788899999999999999996 78889999998887


Q ss_pred             cC
Q 028098          211 SG  212 (214)
Q Consensus       211 ~~  212 (214)
                      +.
T Consensus       172 ~A  173 (183)
T d1u1qa_         172 KA  173 (183)
T ss_dssp             EC
T ss_pred             ec
Confidence            64

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=1.4e-15  Score=112.26  Aligned_cols=66  Identities=15%  Similarity=0.174  Sum_probs=59.4

Q ss_pred             CCCCEEEEcC--CCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecc
Q 028098          130 DASSTLFVEG--LPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVV  204 (214)
Q Consensus       130 ~~s~tLfVgn--Lp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~  204 (214)
                      .++++|||.|  ||.++|+++|+++|++||.|++|+++.++     |    ||||+|.+.++|++|++.|||+.|..
T Consensus        16 ~pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~k-----~----~aFV~f~~~e~A~~A~~~lng~~i~~   83 (101)
T d2cq2a1          16 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNK-----P----YSFARYRTTEESKRAYVTLNGKEVVD   83 (101)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTC-----S----CEEEEESSHHHHHHHHHHTTTCEEEC
T ss_pred             CCCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccCc-----c----EEEEEECCHHHHHHHHHHhCCCCCCC
Confidence            3478999955  99999999999999999999999988765     3    99999999999999999999998843

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.51  E-value=1.4e-14  Score=108.62  Aligned_cols=71  Identities=11%  Similarity=0.053  Sum_probs=62.6

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCH-HHHHHHHHHhCCCeecccccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP-AHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~-~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      .-.+||||||..+|+++|+++|++||.|..|+|+.++     |    ||||.|.++ ++|.+|+..||+..|.+..+.+.
T Consensus        11 ~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~k-----g----~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~   81 (113)
T d1owxa_          11 CLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGA-----K----EGIILFKEKAKEALGKAKDANNGNLQLRNKEVT   81 (113)
T ss_dssp             CEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTC-----S----EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEE
T ss_pred             CeEEEECCCCCCCCHHHHHHHHHhcCChheEEEecCC-----c----eEEEEecCcHHHHHHHHHHhcCCceecCceEEE
Confidence            4467999999999999999999999999999998664     4    999999996 67899999999999988877664


Q ss_pred             c
Q 028098          211 S  211 (214)
Q Consensus       211 ~  211 (214)
                      +
T Consensus        82 ~   82 (113)
T d1owxa_          82 W   82 (113)
T ss_dssp             E
T ss_pred             E
Confidence            3

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=1.8e-15  Score=112.41  Aligned_cols=74  Identities=11%  Similarity=0.042  Sum_probs=67.8

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +.++|.+++.+++|++|+++|++||.|++|+|+.+..    |+++|||||+|.+.++|++|++.|||..+.++++.++
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~----~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~  101 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLG----DHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAE  101 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS----SSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEE
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCC----CCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEE
Confidence            4588899999999999999999999999999987754    6778899999999999999999999999999999875

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=4.3e-14  Score=111.89  Aligned_cols=75  Identities=13%  Similarity=0.162  Sum_probs=63.3

Q ss_pred             CCCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeeccccccc
Q 028098          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQY  209 (214)
Q Consensus       131 ~s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~  209 (214)
                      ..++|||+|||+++|+++|+++|++||.|.++.++.+...   |.++|||||+|.+.++|++|++.+ +..+...++..
T Consensus         5 ~~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~---~~~~g~afv~f~~~~~a~~a~~~~-~~~~~~~~~~~   79 (183)
T d1u1qa_           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNT---KRSRGFGFVTYATVEEVDAAMNAR-PHKVDGRVVEP   79 (183)
T ss_dssp             HHHEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHHTC-SCEETTEECEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccC---CCccCceecccCCHHHHHHHHHhc-CCcccccchhh
Confidence            3589999999999999999999999999999999988743   677889999999999999999754 44455554443

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.38  E-value=3.5e-13  Score=95.70  Aligned_cols=66  Identities=11%  Similarity=0.045  Sum_probs=56.7

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccc
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQ  208 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~  208 (214)
                      .+.|+|.+||++++++.| +.|++||.|.++++...+     |    ||||+|.++++|++||+ |||..|.++.+.
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~~~~-----~----~~fV~f~~~~~A~~Al~-~nG~~~~g~~~v   69 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYGNILKHVMSNTG-----N----WMHIRYQSKLQARKALS-KDGRIFGESIMI   69 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEECSSS-----S----EEEEEESSHHHHHHHHT-TTTCEETTTEEC
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhhhhheEEecCCC-----C----EEEEEEcccHHHHHHHh-cCCCeECCcEEE
Confidence            578999999999987655 579999999999986543     3    99999999999999996 999999887643

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.31  E-value=2.5e-12  Score=94.05  Aligned_cols=74  Identities=15%  Similarity=0.160  Sum_probs=63.7

Q ss_pred             CCCEEEEcCC--CCcC---------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCC
Q 028098          131 ASSTLFVEGL--PSDC---------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQV  199 (214)
Q Consensus       131 ~s~tLfVgnL--p~~~---------te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG  199 (214)
                      .+++|+|.||  |.++         .+++|++.|++||.|..|++..++.       +|||||+|.+.++|.+|++.|||
T Consensus         7 ~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~~-------~G~~fV~f~~~e~A~~A~~~lng   79 (99)
T d2dita1           7 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRHP-------DGVASVSFRDPEEADYCIQTLDG   79 (99)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTCT-------TCEEEEECSCHHHHHHHHHHSTT
T ss_pred             CccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCCC-------ccEEEEEECCHHHHHHHHHHhCC
Confidence            4789999999  6543         2368999999999999999877642       24999999999999999999999


Q ss_pred             Ceeccccccccc
Q 028098          200 QSKVVAPNQYQS  211 (214)
Q Consensus       200 ~~l~~~P~~~~~  211 (214)
                      ..+.++++.+..
T Consensus        80 ~~~~gr~i~v~~   91 (99)
T d2dita1          80 RWFGGRQITAQA   91 (99)
T ss_dssp             CEETTEECEEEE
T ss_pred             cEECCEEEEEEE
Confidence            999999998874

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=3.4e-12  Score=93.94  Aligned_cols=78  Identities=14%  Similarity=0.072  Sum_probs=64.1

Q ss_pred             CCEEEEcCC--CCcC--------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCe
Q 028098          132 SSTLFVEGL--PSDC--------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQS  201 (214)
Q Consensus       132 s~tLfVgnL--p~~~--------te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~  201 (214)
                      +++|.|.|+  +.++        ..++|++.|++||.|++|.|+.+..... ...+|++||+|.+.++|.+|++.|||..
T Consensus         4 s~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~-~~~~g~vfV~f~~~e~A~~A~~~l~Gr~   82 (104)
T d1o0pa_           4 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVE-VPGCGKIFVEFTSVFDCQKAMQGLTGRK   82 (104)
T ss_dssp             CSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSS-CTTCCEEEEEESCHHHHHHHHHHHSSCC
T ss_pred             CcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCc-cCCceEEEEEECCHHHHHHHHHHHCCCE
Confidence            889999999  4433        3467899999999999999987653211 1234699999999999999999999999


Q ss_pred             ecccccccc
Q 028098          202 KVVAPNQYQ  210 (214)
Q Consensus       202 l~~~P~~~~  210 (214)
                      +.+++++..
T Consensus        83 f~gR~v~v~   91 (104)
T d1o0pa_          83 FANRVVVTK   91 (104)
T ss_dssp             SSSSCCEEE
T ss_pred             ECCeEEEEE
Confidence            999999864

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.29  E-value=0.0006  Score=48.26  Aligned_cols=71  Identities=10%  Similarity=0.177  Sum_probs=59.6

Q ss_pred             CEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcc-cEEEEEecCHHHHHHHHHHhCCCeeccc
Q 028098          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPL-ILCFVDFVSPAHAATAMDALQVQSKVVA  205 (214)
Q Consensus       133 ~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~k-g~aFVeF~~~~~A~~Al~~LnG~~l~~~  205 (214)
                      ++|.|+.||++.||+++.+.++..+.+........+...  +.+. .-|+|.|.+.++...-.+.++|+.+.+.
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~--~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D~   73 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSL--YPHMYARAYINFKNQEDIILFRDRFDGYVFLDN   73 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSS--TTCCCEEEEEEESSSHHHHHHHHHHTTCEEECT
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCC--CCCcceEEEEEeCCHHHHHHHHHHcCCcEEEcC
Confidence            589999999999999999999999999888777776211  2222 5799999999999999999999988764

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.16  E-value=0.00017  Score=51.25  Aligned_cols=66  Identities=12%  Similarity=0.098  Sum_probs=53.2

Q ss_pred             CEEEEcCCCCcCCH---------HHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeec
Q 028098          133 STLFVEGLPSDCSR---------REVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKV  203 (214)
Q Consensus       133 ~tLfVgnLp~~~te---------~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~  203 (214)
                      -||.|.=+.+...+         .+|.+.|.+||+|.-||++.+           --.|.|.+-++|.+|+ .|+|.+++
T Consensus        16 gTIvV~i~~~s~e~~~~FDe~l~~~Llq~l~~~GeViLvRFv~d-----------~mwVTF~dG~SAL~al-~l~g~~v~   83 (95)
T d1ufwa_          16 ATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQG-----------QMLVTFADSHSALSVL-DVDGMKVK   83 (95)
T ss_dssp             CEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETT-----------EEEEECSCSHHHHHHH-HGGGSEET
T ss_pred             cEEEEEeccCCccccccCCHHHHHHHHHHHhhCCeEEEEEEeCC-----------eEEEEECCcHHHHHHh-ccCCeEEc
Confidence            37777555433333         468889999999999999998           4789999999999998 78999999


Q ss_pred             ccccccc
Q 028098          204 VAPNQYQ  210 (214)
Q Consensus       204 ~~P~~~~  210 (214)
                      ++-++|.
T Consensus        84 G~~l~It   90 (95)
T d1ufwa_          84 GRAVKIS   90 (95)
T ss_dssp             TEEEEEE
T ss_pred             ceEEEEe
Confidence            8887764

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.97  E-value=0.019  Score=40.76  Aligned_cols=56  Identities=13%  Similarity=0.355  Sum_probs=47.9

Q ss_pred             CCEEEEcCCCCcCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhC
Q 028098          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (214)
Q Consensus       132 s~tLfVgnLp~~~te~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~Ln  198 (214)
                      ..-+|.-..|......||.+||++||.| .|-.+.+-          -|||.-.+.++|+.++..+.
T Consensus        15 RdHVf~~tFP~~Wk~~dI~~lFSpfG~V-~VswIddT----------Sa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          15 RDHVLHVTFPKEWKTSDLYQLFSAFGNI-QISWIDDT----------SAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CCSEEEEECCTTCCHHHHHHHHTTTCSC-CCEEEETT----------EEEEECSCHHHHHHHHHHHH
T ss_pred             cceeEEEeCCcccchhHHHHHhcCCCce-EEEEecCc----------eEEEEecCHHHHHHHHHHhc
Confidence            4578888999999999999999999987 56666664          79999999999999987643

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.62  E-value=0.03  Score=37.49  Aligned_cols=58  Identities=14%  Similarity=0.040  Sum_probs=47.7

Q ss_pred             HHHHHhhcCCCCeEEEEEeeCCCCCCCCCcccEEEEEecCHHHHHHHHHHhCCCeecccccccc
Q 028098          147 REVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQVQSKVVAPNQYQ  210 (214)
Q Consensus       147 ~eL~~lF~~fG~i~~vrl~~~k~~~~gG~~kg~aFVeF~~~~~A~~Al~~LnG~~l~~~P~~~~  210 (214)
                      +-|.++|++++.|.+|.|..-.....      .|-|.-.+..+|..|++.|+=++|..+-|++.
T Consensus        11 q~L~~~f~~h~~V~sv~l~~~~dg~~------~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs   68 (73)
T d2dgxa1          11 QLLQEAFARHGKVKSVELSPHTDYQL------KAVVQMENLQDAIGAVNSLHRYKIGSKKILVS   68 (73)
T ss_dssp             HHHHHHHHHHSCEEEEEECSCCSTTC------CEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             HHHHHHHHhheeEEEEEEEeccCCcE------EEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEE
Confidence            34568899999999998876543222      69999999999999999999999998877654