Citrus Sinensis ID: 026648

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-----
Protein Sequence
MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQIACEYISDKICVHIKFLCMHN
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHccccccEEEEEEEcccccccccccEEEEEEEccHHHHHHHHHHHccccccccccEEEEEEHHHHccccccEEEEEEEEEccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHccccccEEEEEEEccccccccccEEEEEEEcccHHHHHHHHHHHcccccEEEEccEEEEHHHHHHHHHccEEEEEEEEEccc
Coil and Loop (DISEMBL)
madgywrysdarqpqsalpslvskrprtdydvpsghelssyytrdddrgalrgmrdtdslgasYDRYLRSAqissysggqsarhmsggmpsrpvddprivgiggmdpgpsakdralglgggrsevplppdasstlfveglpsdcsrrevahifrpfvgyKEVRLVSkesrhpggdplilcfvdfvspaHAATAMDAlqgqsniiclSNLVVFYQIACEYISDKICVHIKFLCMHN
Flexible Loop (DISEMBL)
madgywrysdarqpqsalpslvskrprtdydvpsghelssyytrdddrgalrGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQIACEYISDKICVHIKFLCMHN
Low Complexity Region (SEG)
MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQIACEYISDKICVHIKFLCMHN
Disordered region (IsUnstruct)
**************************************************************************************************************************************LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQIACEYISDKICVHIKFLCM**
Disordered Region (DISOPRED)
*ADGYW*******************************************************************************************************************************TLFVEGLPSDCSRREVAHIFRPFVGYKEVRL**********DPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQIACEYISDKICVHIKFLCMHN
Disordered Region (DISEMBL)
MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQI******************RPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQIACEYISDKICVHIKFLCMHN
Disordered Region (DISPRO)
*********D********************DVPSGHELSS*YTRDDDRGALRGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQIACEYISDKICVHIKFLCMHN
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQIACEYISDKICVHIKFLCMHN
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	235	2.2.26 [Sep-21-2011]
Q9W6I1	200	RNA-binding protein with	yes	no	0.323	0.38	0.420	9e-06
Q9WVB0	197	RNA-binding protein with	yes	no	0.314	0.375	0.397	1e-05
Q8VC52	206	RNA-binding protein with	no	no	0.251	0.286	0.484	4e-05
Q93062	196	RNA-binding protein with	yes	no	0.251	0.301	0.454	4e-05
B8AM21	232	U2 small nuclear ribonucl	N/A	no	0.348	0.353	0.292	5e-05
Q10MR0	232	U2 small nuclear ribonucl	no	no	0.348	0.353	0.292	5e-05
Q6ZRY4	209	RNA-binding protein with	no	no	0.251	0.282	0.469	7e-05
Q9YGP5	196	RNA-binding protein with	N/A	no	0.251	0.301	0.454	0.0001
Q39244	250	U1 small nuclear ribonucl	no	no	0.344	0.324	0.297	0.0001
Q9CQI7	225	U2 small nuclear ribonucl	no	no	0.310	0.324	0.357	0.0003

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

 Score = 50.8 bits (120), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 37/88 (42%), Positives = 43/88 (48%), Gaps = 12/88 (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 PGGDPLILCFVDFVSPAHAATAMDALQG 199
           P G      FV F S A A  A +AL G
Sbjct: 60  PVG------FVTFDSRAGAEAAKNALNG 81

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 = 50.1 bits (118), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 35/88 (39%), Positives = 45/88 (51%), Gaps = 14/88 (15%)

Query: 119 GGGRSEVPLPPDASS-------TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRH 171
           GGG++E    P  ++       TLFV GLP D   RE+  +FRPF GY E  L+   S+ 
Sbjct: 3   GGGKAEKENTPSEANLQEEEVRTLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQ 61

Query: 172 PGGDPLILCFVDFVSPAHAATAMDALQG 199
           P G      FV F S + A  A +AL G
Sbjct: 62  PVG------FVSFDSRSEAEAAKNALNG 83

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

 Score = 48.5 bits (114), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 32/66 (48%), Positives = 36/66 (54%), Gaps = 7/66 (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 MDALQG 199
            +AL G
Sbjct: 79  KNALNG 84

Mus musculus (taxid: 10090)

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

 Score = 48.5 bits (114), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 30/66 (45%), Positives = 36/66 (54%), Gaps = 7/66 (10%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TLFV GLP D   RE+  +FRPF GY E  L+   S+ P G      FV F S + A  A
Sbjct: 25  TLFVSGLPLDIKPRELYLLFRPFKGY-EGSLIKLTSKQPVG------FVSFDSRSEAEAA 77

Query: 194 MDALQG 199
            +AL G
Sbjct: 78  KNALNG 83

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

 Score = 48.1 bits (113), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/99 (29%), Positives = 53/99 (53%), Gaps = 17/99 (17%)

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

Query: 161 EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQG 199
           EVR++  +   PG     + FV++   + +  AM ALQG
Sbjct: 186 EVRMIEAK---PG-----IAFVEYEDDSQSMVAMQALQG 216

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 = 48.1 bits (113), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/99 (29%), Positives = 53/99 (53%), Gaps = 17/99 (17%)

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

Query: 161 EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQG 199
           EVR++  +   PG     + FV++   + +  AM ALQG
Sbjct: 186 EVRMIEAK---PG-----IAFVEYEDDSQSMVAMQALQG 216

Involved in nuclear pre-mRNA splicing.

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 47.8 bits (112), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 31/66 (46%), Positives = 36/66 (54%), Gaps = 7/66 (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 MDALQG 199
            +AL G
Sbjct: 85  KNALNG 90

Homo sapiens (taxid: 9606)

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

 Score = 47.0 bits (110), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 30/66 (45%), Positives = 36/66 (54%), Gaps = 7/66 (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 MDALQG 199
            +AL G
Sbjct: 74  KNALNG 79

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 = 47.0 bits (110), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 28/94 (29%), Positives = 47/94 (50%), Gaps = 13/94 (13%)

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

Query: 177 LILCFVDFVSPAHAATAMDALQG---QSNIICLS 207
             + FV+F     +  AM  LQG   Q N + ++
Sbjct: 215 --IAFVEFADEMQSTVAMQGLQGFKIQQNQMLIT 246

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CQI7|RU2B_MOUSE U2 small nuclear ribonucleoprotein B'' OS=Mus musculus GN=Snrpb2 PE=2 SV=1

 Score = 45.8 bits (107), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 42/84 (50%), Gaps = 11/84 (13%)

Query: 117 GLGGGRSEVP-LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGD 175
           G      +VP  PP+    LF+  LP + +   ++ +F  F G+KEVRLV    RH    
Sbjct: 136 GTAAPNPQVPDYPPN--YILFLNNLPEETNEMMLSMLFNQFPGFKEVRLVP--GRHD--- 188

Query: 176 PLILCFVDFVSPAHAATAMDALQG 199
              + FV+F +   A  A DALQG
Sbjct: 189 ---IAFVEFENDGQAGAARDALQG 209

Involved in pre-mRNA splicing. This protein is associated with snRNP U2. It binds stem loop IV of U2 snRNA only in presence of the U2A' protein.

Mus musculus (taxid: 10090)

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	235
255549562	232	nucleic acid binding protein, putative [	0.842	0.853	0.82	1e-87
427199356	233	RNA-binding protein with multiple splici	0.846	0.854	0.8	2e-87
224118350	233	predicted protein [Populus trichocarpa]	0.842	0.849	0.771	8e-81
302143942	230	unnamed protein product [Vitis vinifera]	0.838	0.856	0.718	5e-77
359490723	229	PREDICTED: uncharacterized protein LOC10	0.834	0.855	0.713	6e-75
224135091	220	predicted protein [Populus trichocarpa]	0.791	0.845	0.74	1e-74
363807818	230	uncharacterized protein LOC100786188 [Gl	0.838	0.856	0.663	9e-70
363818125	230	uncharacterized protein LOC100800440 [Gl	0.838	0.856	0.658	6e-69
449456997	232	PREDICTED: uncharacterized protein LOC10	0.842	0.853	0.65	1e-68
357464013	243	RNA-binding protein with multiple splici	0.923	0.893	0.582	9e-68

>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 =  328 bits (840), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 164/200 (82%), Positives = 179/200 (89%), Gaps = 2/200 (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 CFVDFVSPAHAATAMDALQG 199
           CFVDF+SPAHAATAMDALQG
Sbjct: 180 CFVDFLSPAHAATAMDALQG 199

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 =  328 bits (840), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 160/200 (80%), Positives = 178/200 (89%), Gaps = 1/200 (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 CFVDFVSPAHAATAMDALQG 199
           CFVDF+SPAHAATAMDALQG
Sbjct: 181 CFVDFLSPAHAATAMDALQG 200

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 =  305 bits (782), Expect = 8e-81,   Method: Compositional matrix adjust.
 Identities = 155/201 (77%), Positives = 175/201 (87%), Gaps = 3/201 (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 LCFVDFVSPAHAATAMDALQG 199
           LCFVDF+SPAHAATAMDALQG
Sbjct: 180 LCFVDFLSPAHAATAMDALQG 200

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 =  293 bits (749), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 143/199 (71%), Positives = 171/199 (85%), Gaps = 2/199 (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 FVDFVSPAHAATAMDALQG 199
           FVDFVSPAHAATAMDALQG
Sbjct: 179 FVDFVSPAHAATAMDALQG 197

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 =  286 bits (731), Expect = 6e-75,   Method: Compositional matrix adjust.
 Identities = 142/199 (71%), Positives = 170/199 (85%), Gaps = 3/199 (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 FVDFVSPAHAATAMDALQG 199
           FVDFVSPAHAATAMDALQG
Sbjct: 178 FVDFVSPAHAATAMDALQG 196

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 =  285 bits (728), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 148/200 (74%), Positives = 166/200 (83%), Gaps = 14/200 (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 CFVDFVSPAHAATAMDALQG 199
           CFVDF+SPAHAAT+MDALQG
Sbjct: 168 CFVDFLSPAHAATSMDALQG 187

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 (686), Expect = 9e-70,   Method: Compositional matrix adjust.
 Identities = 132/199 (66%), Positives = 159/199 (79%), Gaps = 2/199 (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 FVDFVSPAHAATAMDALQG 199
           FVDF+SPAHAATAM+ALQG
Sbjct: 179 FVDFMSPAHAATAMEALQG 197

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 =  266 bits (680), Expect = 6e-69,   Method: Compositional matrix adjust.
 Identities = 131/199 (65%), Positives = 158/199 (79%), Gaps = 2/199 (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 FVDFVSPAHAATAMDALQG 199
           FVDF+SPAHAATAM+ALQG
Sbjct: 179 FVDFLSPAHAATAMEALQG 197

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 =  265 bits (676), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 130/200 (65%), Positives = 160/200 (80%), Gaps = 2/200 (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 CFVDFVSPAHAATAMDALQG 199
            FVDFVSPAHAATAMDALQG
Sbjct: 180 GFVDFVSPAHAATAMDALQG 199

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357464013|ref|XP_003602288.1| RNA-binding protein with multiple splicing [Medicago truncatula] gi|355491336|gb|AES72539.1| RNA-binding protein with multiple splicing [Medicago truncatula]

 Score =  262 bits (669), Expect = 9e-68,   Method: Compositional matrix adjust.
 Identities = 130/223 (58%), Positives = 169/223 (75%), Gaps = 6/223 (2%)

Query: 1   MADGYWRYSDARQPQSALPSLVSKRPRTDYDVPSGHELSSYYTRDDDRGALRGMRDTDSL 60
           M+D YWRY++++Q   A P++  KRPRT+YDV   H L++Y+  DDDRG L+ +RDT+SL
Sbjct: 1   MSDAYWRYAESQQ--HAPPTIPGKRPRTEYDVSGVHNLANYFPHDDDRGRLQVIRDTESL 58

Query: 61  GASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGG 120
            ASY+RYLR+A ISS+  GQS R + GG+PS  +DD  +  +GG+D   + KD+ L L G
Sbjct: 59  DASYERYLRNA-ISSHGSGQSTRTIDGGVPSHSIDDSHVTSMGGVDRRTNVKDQILELSG 117

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           GR +  LPP A++TLFVEGLPS+C+RREVAHIFRPFVGYKEVRLVSKESR PGGDPL+LC
Sbjct: 118 GRPDHSLPPGATNTLFVEGLPSNCTRREVAHIFRPFVGYKEVRLVSKESRQPGGDPLLLC 177

Query: 181 FVDFVSPAHAATAMDALQGQ---SNIICLSNLVVFYQIACEYI 220
           FVDFVSPAHAATAMDAL G    S I+ ++   +F +   +++
Sbjct: 178 FVDFVSPAHAATAMDALHGNISFSFILVMTTSYIFLRQCVQFL 220

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	235
TAIR|locus:2025232	233	AT1G76940 [Arabidopsis thalian	0.795	0.802	0.495	1.6e-40
TAIR|locus:2014937	421	AT1G21320 [Arabidopsis thalian	0.723	0.403	0.481	7e-38
UNIPROTKB|F5H357	153	RBPMS "RNA-binding protein wit	0.297	0.457	0.428	6.7e-07
RGD|1561067	110	Rbpms "RNA binding protein wit	0.251	0.536	0.454	4.1e-06
DICTYBASE|DDB_G0268988	356	DDB_G0268988 "RNA-binding regi	0.744	0.491	0.274	1.5e-05
UNIPROTKB|H0YBU9	119	RBPMS "RNA-binding protein wit	0.246	0.487	0.446	1.5e-05
UNIPROTKB|Q93062	196	RBPMS "RNA-binding protein wit	0.297	0.357	0.428	2.5e-05
MGI|MGI:1334446	197	Rbpms "RNA binding protein gen	0.297	0.355	0.428	2.6e-05
UNIPROTKB|E2R5F7	219	RBPMS "Uncharacterized protein	0.297	0.319	0.428	4e-05
UNIPROTKB|B4E3T4	224	RBPMS "HCG2043421, isoform CRA	0.297	0.312	0.428	4.4e-05

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

 Score = 431 (156.8 bits), Expect = 1.6e-40, P = 1.6e-40
 Identities = 106/214 (49%), Positives = 136/214 (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 SKESRHPGGDPLILCFVDFVSPAHAATAMDALQG 199
             +K+S+H  GDP++LCFVDF +PA AATA+ ALQG
Sbjct:   169 TKDSKHRNGDPIVLCFVDFTNPACAATALSALQG 202

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 = 117 (46.2 bits), Expect = 6.7e-07, P = 6.7e-07
 Identities = 33/77 (42%), Positives = 40/77 (51%)

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 DFVSPAHAATAMDALQG 199
              F S + A  A +AL G
Sbjct:    67 SFDSRSEAEAAKNALNG 83

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 = 110 (43.8 bits), Expect = 4.1e-06, P = 4.1e-06
 Identities = 30/66 (45%), Positives = 36/66 (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 MDALQG 199
              +AL G
Sbjct:    56 KNALNG 61

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 = 125 (49.1 bits), Expect = 1.5e-05, P = 1.5e-05
 Identities = 56/204 (27%), Positives = 88/204 (43%)

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 PLILCFVDFVSPAHAATAMDALQG 199
                +CF DF+    +  A++ LQG
Sbjct:   312 ---MCFCDFIDTQSSMFALEFLQG 332

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 = 105 (42.0 bits), Expect = 1.5e-05, P = 1.5e-05
 Identities = 29/65 (44%), Positives = 35/65 (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 DALQG 199
             +AL G
Sbjct:    55 NALNG 59

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 = 117 (46.2 bits), Expect = 2.5e-05, P = 2.5e-05
 Identities = 33/77 (42%), Positives = 40/77 (51%)

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 DFVSPAHAATAMDALQG 199
              F S + A  A +AL G
Sbjct:    67 SFDSRSEAEAAKNALNG 83

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 = 117 (46.2 bits), Expect = 2.6e-05, P = 2.6e-05
 Identities = 33/77 (42%), Positives = 40/77 (51%)

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 DFVSPAHAATAMDALQG 199
              F S + A  A +AL G
Sbjct:    67 SFDSRSEAEAAKNALNG 83

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 = 117 (46.2 bits), Expect = 4.0e-05, P = 4.0e-05
 Identities = 33/77 (42%), Positives = 40/77 (51%)

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 DFVSPAHAATAMDALQG 199
              F S + A  A +AL G
Sbjct:    67 SFDSRSEAEAAKNALNG 83

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 = 117 (46.2 bits), Expect = 4.4e-05, P = 4.4e-05
 Identities = 33/77 (42%), Positives = 40/77 (51%)

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 DFVSPAHAATAMDALQG 199
              F S + A  A +AL G
Sbjct:    67 SFDSRSEAEAAKNALNG 83

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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	235
cd12420	79	cd12420, RRM_RBPMS_like, RNA recognition motif in	4e-30
cd12247	72	cd12247, RRM2_U1A_like, RNA recognition motif 2 in	1e-14
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	4e-11
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	4e-10
cd12245	79	cd12245, RRM_scw1_like, RNA recognition motif in y	2e-09
smart00360	73	smart00360, RRM, RNA recognition motif	3e-09
cd12320	76	cd12320, RRM6_RBM19_RRM5_MRD1, RNA recognition mot	6e-09
cd12683	76	cd12683, RRM_RBPMS2, RNA recognition motif in vert	5e-08
cd12682	76	cd12682, RRM_RBPMS, RNA recognition motif in verte	2e-07
cd12481	80	cd12481, RRM2_U2B, RNA recognition motif 2 found i	2e-07
cd12571	79	cd12571, RRM6_RBM19, RNA recognition motif 6 in RN	6e-07
cd12392	81	cd12392, RRM2_SART3, RNA recognition motif 2 in sq	6e-07
cd12480	80	cd12480, RRM2_U1A, RNA recognition motif 2 found i	7e-07
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	8e-07
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	1e-06
cd12479	80	cd12479, RRM2_SNF, RNA recognition motif 2 found i	1e-06
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	4e-06
cd12684	83	cd12684, RRM_cpo, RNA recognition motif in Drosoph	2e-05
cd12570	76	cd12570, RRM5_MRD1, RNA recognition motif 5 in yea	6e-05
cd12340	67	cd12340, RBD_RRM1_NPL3, RNA recognition motif 1 in	6e-05
cd12318	82	cd12318, RRM5_RBM19_like, RNA recognition motif 5	6e-05
cd12567	79	cd12567, RRM3_RBM19, RNA recognition motif 3 in RN	1e-04
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	4e-04
cd12361	77	cd12361, RRM1_2_CELF1-6_like, RNA recognition moti	7e-04
cd12313	84	cd12313, RRM1_RRM2_RBM5_like, RNA recognition moti	0.002
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	0.002
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	0.002
cd12375	77	cd12375, RRM1_Hu_like, RNA recognition motif 1 in	0.003

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

 Score =  106 bits (267), Expect = 4e-30
 Identities = 40/67 (59%), Positives = 45/67 (67%), Gaps = 2/67 (2%)

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

Query: 193 AMDALQG 199
           AMDALQG
Sbjct: 59  AMDALQG 65

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

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

 Score = 66.4 bits (163), Expect = 1e-14
 Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 9/70 (12%)

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

Query: 192 TAMDALQGQS 201
            A+ ALQG  
Sbjct: 53  VALQALQGFK 62

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 = 56.9 bits (138), Expect = 4e-11
 Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 4/67 (5%)

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

Query: 195 DALQGQS 201
           +AL G+ 
Sbjct: 57  EALNGKE 63

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 = 54.1 bits (131), Expect = 4e-10
 Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 4/66 (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 DALQGQ 200
           +AL G+
Sbjct: 57  EALNGK 62

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

 Score = 52.6 bits (127), Expect = 2e-09
 Identities = 21/67 (31%), Positives = 38/67 (56%), Gaps = 7/67 (10%)

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

Query: 193 AMDALQG 199
           A+++LQG
Sbjct: 56  ALNSLQG 62

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|214636 smart00360, RRM, RNA recognition motif

 Score = 51.4 bits (124), Expect = 3e-09
 Identities = 26/68 (38%), Positives = 35/68 (51%), Gaps = 5/68 (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 AMDALQGQ 200
           A++AL G+
Sbjct: 57  ALEALNGK 64

Length = 73

>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 = 51.1 bits (123), Expect = 6e-09
 Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 6/68 (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 TAMDALQG 199
            AM+AL+ 
Sbjct: 56  NAMEALKS 63

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

 Score = 48.5 bits (115), Expect = 5e-08
 Identities = 31/66 (46%), Positives = 36/66 (54%), Gaps = 7/66 (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 MDALQG 199
            +AL G
Sbjct: 56  KNALNG 61

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

 Score = 47.3 bits (112), Expect = 2e-07
 Identities = 30/66 (45%), Positives = 36/66 (54%), Gaps = 7/66 (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 MDALQG 199
            +AL G
Sbjct: 56  KNALNG 61

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

 Score = 46.9 bits (111), Expect = 2e-07
 Identities = 28/72 (38%), Positives = 39/72 (54%), Gaps = 10/72 (13%)

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

Query: 188 AHAATAMDALQG 199
           A A  A DALQG
Sbjct: 53  AQAGAARDALQG 64

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

 Score = 45.5 bits (108), Expect = 6e-07
 Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 9/80 (11%)

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

Query: 194 ---MDALQGQSNII--CLSN 208
              MD  + +   I   +SN
Sbjct: 60  VLKMDGTEIKEKTISVAISN 79

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|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 = 45.5 bits (107), Expect = 7e-07
 Identities = 30/84 (35%), Positives = 44/84 (52%), Gaps = 14/84 (16%)

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

Query: 188 AHAATAMDALQG----QSNIICLS 207
             A  A +ALQG    QSN + +S
Sbjct: 53  VQAGAAREALQGFKITQSNAMKIS 76

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|222631 pfam14259, RRM_6, RNA recognition motif (a

 Score = 44.8 bits (107), Expect = 8e-07
 Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 5/65 (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 DALQG 199
             L G
Sbjct: 56  KKLNG 60

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

>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 = 44.6 bits (106), Expect = 1e-06
 Identities = 23/67 (34%), Positives = 30/67 (44%), Gaps = 5/67 (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 MDALQGQ 200
              L G 
Sbjct: 58  YSELDGS 64

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

 Score = 44.7 bits (105), Expect = 1e-06
 Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 10/72 (13%)

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

Query: 188 AHAATAMDALQG 199
             +A A +ALQG
Sbjct: 53  VQSAAAKEALQG 64

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 = 43.4 bits (103), Expect = 4e-06
 Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 11/73 (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 HAATAMDALQGQS 201
            A  A+  L G+ 
Sbjct: 55  DADAAIRDLNGKE 67

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

 Score = 41.6 bits (97), Expect = 2e-05
 Identities = 26/66 (39%), Positives = 33/66 (50%), Gaps = 2/66 (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 MDALQG 199
              LQG
Sbjct: 61  KQDLQG 66

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

 Score = 40.2 bits (94), Expect = 6e-05
 Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 4/65 (6%)

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

Query: 195 DALQG 199
           +AL+ 
Sbjct: 59  NALKD 63

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

 Score = 39.7 bits (93), Expect = 6e-05
 Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 11/67 (16%)

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 DALQGQS 201
           D++ G+ 
Sbjct: 51  DSVHGKV 57

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

 Score = 40.3 bits (95), Expect = 6e-05
 Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 2/69 (2%)

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

Query: 191 ATAMDALQG 199
             A+  LQG
Sbjct: 61  QKALKRLQG 69

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

 Score = 38.9 bits (91), Expect = 1e-04
 Identities = 20/71 (28%), Positives = 31/71 (43%), 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 ATAMDALQGQS 201
             A   L G  
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

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

 Score = 40.3 bits (93), Expect = 4e-04
 Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 3/74 (4%)

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

Query: 188 AHAATAMDALQGQS 201
             A  A++ L G+ 
Sbjct: 168 ESAEKAIEELNGKE 181

Length = 306

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

 Score = 37.1 bits (87), Expect = 7e-04
 Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 8/80 (10%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLV--SKESRHPGGDPLILCFVDFVSPAHAAT 192
           LFV  LP   +  +V  +F  +   +EV ++      +  G       FV F S   A  
Sbjct: 2   LFVGQLPKTATEEDVRALFEEYGNIEEVTIIRDKDTGQSKG-----CAFVKFSSREEAQK 56

Query: 193 AMDALQGQSNI-ICLSNLVV 211
           A++AL G+  +      L V
Sbjct: 57  AIEALHGKVTMPGASRPLQV 76

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

>gnl|CDD|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 = 0.002
 Identities = 20/74 (27%), Positives = 30/74 (40%), Gaps = 13/74 (17%)

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

Query: 186 SPAHAATAMDALQG 199
           S   A   MDAL  
Sbjct: 55  SLEDATQWMDALNN 68

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

 Score = 36.1 bits (84), Expect = 0.002
 Identities = 18/70 (25%), Positives = 27/70 (38%), Gaps = 11/70 (15%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV----SKESRHPGGDPLILCFVDFVSPAH 189
           TLFV  LP D +  ++   F      K   +V    SK+ R  G       +V F     
Sbjct: 1   TLFVRNLPYDTTDEQLEEFFSEVGPIKRCFVVKDKGSKKCRGFG-------YVTFALEED 53

Query: 190 AATAMDALQG 199
           A  A++  + 
Sbjct: 54  AKRALEEKKK 63

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

>gnl|CDD|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 = 35.6 bits (83), Expect = 0.002
 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|240821 cd12375, RRM1_Hu_like, RNA recognition motif 1 in the Hu proteins family, Drosophila sex-lethal (SXL), and similar proteins

 Score = 35.4 bits (82), Expect = 0.003
 Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 7/69 (10%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC--FVDFVSPAHA 190
           + L V  LP D ++ E+  +F      +  ++V    R  G     L   FVD+V    A
Sbjct: 1   TNLIVNYLPQDMTQEELRSLFEAIGPIESCKIV--RDRITGQS---LGYGFVDYVDENDA 55

Query: 191 ATAMDALQG 199
             A++ L G
Sbjct: 56  QKAINTLNG 64

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	235
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.65
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.63
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.61
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.61
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.58
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.58
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.57
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.57
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.54
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	99.54
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.52
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.44
KOG0122	270	consensus Translation initiation factor 3, subunit	99.44
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.42
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.41
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.41
smart00362	72	RRM_2 RNA recognition motif.	99.4
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.35
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.35
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.35
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.35
PLN03120	260	nucleic acid binding protein; Provisional	99.35
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.34
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.34
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.32
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.32
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.29
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.29
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	99.29
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.27
PLN03121	243	nucleic acid binding protein; Provisional	99.26
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.26
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.25
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.25
smart00360	71	RRM RNA recognition motif.	99.25
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.25
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.22
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.22
PLN03213	759	repressor of silencing 3; Provisional	99.18
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.17
KOG4207	256	consensus Predicted splicing factor, SR protein su	99.16
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.16
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.1
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.07
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.06
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	99.06
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.05
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	99.04
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.02
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	99.02
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	99.0
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.0
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.99
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	98.99
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.96
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.95
smart00361	70	RRM_1 RNA recognition motif.	98.9
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	98.86
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	98.79
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.79
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.77
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.76
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	98.73
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.7
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	98.7
KOG1457	284	consensus RNA binding protein (contains RRM repeat	98.7
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.66
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.64
KOG1457	284	consensus RNA binding protein (contains RRM repeat	98.61
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.58
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.57
KOG0533	243	consensus RRM motif-containing protein [RNA proces	98.55
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	98.53
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.5
KOG4660	549	consensus Protein Mei2, essential for commitment t	98.5
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.48
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.45
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	98.37
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	98.35
KOG0151	877	consensus Predicted splicing regulator, contains R	98.29
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	98.28
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.28
KOG1548	382	consensus Transcription elongation factor TAT-SF1	98.15
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	98.08
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.07
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.03
KOG0226	290	consensus RNA-binding proteins [General function p	97.97
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.86
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	97.78
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	97.66
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	97.6
KOG1855	484	consensus Predicted RNA-binding protein [General f	97.55
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	97.54
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	97.51
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	97.4
KOG2314	698	consensus Translation initiation factor 3, subunit	97.27
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	97.19
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	97.11
KOG1995	351	consensus Conserved Zn-finger protein [General fun	97.09
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	97.04
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.02
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	96.96
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	96.89
KOG4210	285	consensus Nuclear localization sequence binding pr	96.84
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	96.82
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	96.76
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	96.75
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	96.67
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	96.67
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	96.62
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	96.57
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	96.56
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	96.53
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.34
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	96.0
KOG1548	382	consensus Transcription elongation factor TAT-SF1	95.77
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	95.72
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	95.54
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	95.31
KOG3152	278	consensus TBP-binding protein, activator of basal	95.0
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	94.66
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	94.64
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	94.4
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	94.37
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	93.29
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	92.95
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	92.83
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	91.86
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	91.65
KOG4574	1007	consensus RNA-binding protein (contains RRM and Pu	91.22
KOG2068	327	consensus MOT2 transcription factor [Transcription	90.63
KOG2591	684	consensus c-Mpl binding protein, contains La domai	90.25
KOG2253	668	consensus U1 snRNP complex, subunit SNU71 and rela	89.22
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	88.83
KOG1996	378	consensus mRNA splicing factor [RNA processing and	88.26
KOG4660	549	consensus Protein Mei2, essential for commitment t	87.63
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	87.18
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	86.32
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	84.89
KOG4210	285	consensus Nuclear localization sequence binding pr	82.34
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	82.05

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

Probab=99.65  E-value=8.7e-16  Score=126.24  Aligned_cols=77  Identities=17%  Similarity=0.236  Sum_probs=67.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      +++|||+|||+++||++|+++|++||.|++|+|+.++ +++    ++|||||+|+++++|++|++.|||..|......+.
T Consensus        34 ~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~----~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~  109 (144)
T PLN03134         34 STKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGR----SRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVN  109 (144)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCC----cceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            5799999999999999999999999999999999987 433    33499999999999999999999999987554544


Q ss_pred             EE
Q 026648          211 VF  212 (235)
Q Consensus       211 ~~  212 (235)
                      +.
T Consensus       110 ~a  111 (144)
T PLN03134        110 PA  111 (144)
T ss_pred             eC
Confidence            43

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.63  E-value=8.3e-15  Score=136.07  Aligned_cols=72  Identities=28%  Similarity=0.364  Sum_probs=64.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..++|||+|||.++||++|+++|+.||.|++|+|+.++ +++.+|    ||||+|.++++|++||+.|||..|....
T Consensus       106 ~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srG----yaFVeF~~~e~A~~Ai~~LnG~~l~gr~  178 (346)
T TIGR01659       106 SGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFG----YAFVDFGSEADSQRAIKNLNGITVRNKR  178 (346)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCc----EEEEEEccHHHHHHHHHHcCCCccCCce
Confidence            46899999999999999999999999999999999987 433334    9999999999999999999998886543

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).

>PF00076 RRM_1: RNA recognition motif

Probab=99.61  E-value=1.7e-15  Score=106.15  Aligned_cols=67  Identities=27%  Similarity=0.459  Sum_probs=60.2

Q ss_pred             EEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       135 LfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      |||+|||.++|+++|+++|++||.|..+.+..+..    +.+.++|||+|.+.++|++|++.|||+.+..+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~----~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~   67 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSS----GKSKGYAFVEFESEEDAEKALEELNGKKINGR   67 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETT----SSEEEEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhccccccccccc----ccccceEEEEEcCHHHHHHHHHHcCCCEECcc
Confidence            79999999999999999999999999999999743    23445999999999999999999999988753

(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 ....

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

Probab=99.61  E-value=1.1e-15  Score=136.38  Aligned_cols=155  Identities=17%  Similarity=0.235  Sum_probs=118.9

Q ss_pred             CCCCccCCCccccccCCcCCCcccCcccccchhhhhhcCC--CcCCCCC-CCCCcccCCCCCCCCCCCCccccCCCCCCC
Q 026648           33 PSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQ--ISSYSGG-QSARHMSGGMPSRPVDDPRIVGIGGMDPGP  109 (235)
Q Consensus        33 ~~~~~~~~y~~~~~~r~~~~~~~~~~~~~~~~~~y~~~~~--~~s~~~g-~~~r~~gGg~~G~~~~~r~~~g~gg~~~~~  109 (235)
                      ++.+||..-.+|+.|-. +--|.|+|+|.+..+.  -|++  |+||-.- ++-+++. +|+|.=+..|.++ ...+.+.+
T Consensus        69 dls~eI~~e~lr~aF~p-FGevS~akvirD~~T~--KsKGYgFVSf~~k~dAEnAI~-~MnGqWlG~R~IR-TNWATRKp  143 (321)
T KOG0148|consen   69 DLSPEIDNEKLREAFAP-FGEVSDAKVIRDMNTG--KSKGYGFVSFPNKEDAENAIQ-QMNGQWLGRRTIR-TNWATRKP  143 (321)
T ss_pred             hcchhcchHHHHHHhcc-ccccccceEeecccCC--cccceeEEeccchHHHHHHHH-HhCCeeeccceee-ccccccCc
Confidence            89999999999997754 5567799999988874  7776  7888774 5557887 8999888887653 44544433


Q ss_pred             CCCC-CcCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHH
Q 026648          110 SAKD-RALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA  188 (235)
Q Consensus       110 ~~~~-r~~g~~~~~p~~~~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~  188 (235)
                      ...+ ....|-. .-....| + +++|||+|++.-+||++|++.|++||.|.+||+-+++     |    |+||.|+++|
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-D-NTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ-----G----YAFVRFETKE  211 (321)
T ss_pred             cccCCCCccHHH-HhccCCC-C-CceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc-----c----eEEEEecchh
Confidence            2211 1111110 0012222 2 6999999999999999999999999999999999997     6    9999999999


Q ss_pred             HHHHHHHHhcCceEee
Q 026648          189 HAATAMDALQGQSNII  204 (235)
Q Consensus       189 ~A~~Ai~~LnG~~i~~  204 (235)
                      .|+.||..+||.+|..
T Consensus       212 aAahAIv~mNntei~G  227 (321)
T KOG0148|consen  212 AAAHAIVQMNNTEIGG  227 (321)
T ss_pred             hHHHHHHHhcCceeCc
Confidence            9999999999999986

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.58  E-value=1e-14  Score=132.80  Aligned_cols=75  Identities=21%  Similarity=0.301  Sum_probs=65.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      +.+|||+|||+++++++|+++|++||.|++|+|+.++ ++..+|    ||||+|.+.++|.+||++|||++|......+.
T Consensus       269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG----~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~  344 (352)
T TIGR01661       269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKG----YGFVSMTNYDEAAMAILSLNGYTLGNRVLQVS  344 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccc----eEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            4579999999999999999999999999999999997 544444    99999999999999999999999986444443

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

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

Probab=99.58  E-value=5.2e-15  Score=145.21  Aligned_cols=97  Identities=21%  Similarity=0.175  Sum_probs=79.6

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       128 ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      +++..++|||+|||.+++|++|+++|++||.|.+|+|+.|.++.    ++|||||+|.+.++|++||+.|||++|...+.
T Consensus        54 ~p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~----sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~  129 (578)
T TIGR01648        54 QPGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQ----NRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRL  129 (578)
T ss_pred             CCCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCC----ccceEEEEeCCHHHHHHHHHHcCCCeecCCcc
Confidence            34456899999999999999999999999999999999997433    33499999999999999999999999875554


Q ss_pred             ceEEEEecccccccCcceeec
Q 026648          208 NLVVFYQIACEYISDKICVHI  228 (235)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~  228 (235)
                      +.+.....+|..++.+|..++
T Consensus       130 l~V~~S~~~~rLFVgNLP~~~  150 (578)
T TIGR01648       130 LGVCISVDNCRLFVGGIPKNK  150 (578)
T ss_pred             ccccccccCceeEeecCCcch
Confidence            433344457777777776654

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.

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.57  E-value=1.6e-15  Score=140.76  Aligned_cols=155  Identities=13%  Similarity=0.108  Sum_probs=111.1

Q ss_pred             CCCCccCCCccccccCCcCCCcccCcccccchhhhhhcCC--CcCCCCCCC-CCcccCCCCCCCCCCCCccccCCCCCCC
Q 026648           33 PSGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQ--ISSYSGGQS-ARHMSGGMPSRPVDDPRIVGIGGMDPGP  109 (235)
Q Consensus        33 ~~~~~~~~y~~~~~~r~~~~~~~~~~~~~~~~~~y~~~~~--~~s~~~g~~-~r~~gGg~~G~~~~~r~~~g~gg~~~~~  109 (235)
                      .+..|++..-+++.|.. +-.|++.+++.+..+.  ++++  |+.|.+.+. ..++. .++|..+.++.+...-. .   
T Consensus       114 nLp~~~te~~L~~lF~~-~G~V~~v~i~~d~~tg--~srGyaFVeF~~~e~A~~Ai~-~LnG~~l~gr~i~V~~a-~---  185 (346)
T TIGR01659       114 YLPQDMTDRELYALFRT-IGPINTCRIMRDYKTG--YSFGYAFVDFGSEADSQRAIK-NLNGITVRNKRLKVSYA-R---  185 (346)
T ss_pred             CCCCCCCHHHHHHHHHh-cCCEEEEEEEecCCCC--ccCcEEEEEEccHHHHHHHHH-HcCCCccCCceeeeecc-c---
Confidence            45667777777777765 3447777777765553  4443  778877644 45776 78888887776532211 0   


Q ss_pred             CCCCCcCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHH
Q 026648          110 SAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPA  188 (235)
Q Consensus       110 ~~~~r~~g~~~~~p~~~~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~  188 (235)
                                   +..  .....++|||+|||.++||++|+++|++||.|++|+|+.++ ++    ++++||||+|++++
T Consensus       186 -------------p~~--~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg----~~kG~aFV~F~~~e  246 (346)
T TIGR01659       186 -------------PGG--ESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTG----TPRGVAFVRFNKRE  246 (346)
T ss_pred             -------------ccc--cccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCC----ccceEEEEEECCHH
Confidence                         000  01124689999999999999999999999999999999987 43    34449999999999


Q ss_pred             HHHHHHHHhcCceEeeeee-ceEEEEe
Q 026648          189 HAATAMDALQGQSNIICLS-NLVVFYQ  214 (235)
Q Consensus       189 ~A~~Ai~~LnG~~i~~~r~-~~~~~~~  214 (235)
                      +|++||++||++.+..... +.|-+++
T Consensus       247 ~A~~Ai~~lng~~~~g~~~~l~V~~a~  273 (346)
T TIGR01659       247 EAQEAISALNNVIPEGGSQPLTVRLAE  273 (346)
T ss_pred             HHHHHHHHhCCCccCCCceeEEEEECC
Confidence            9999999999998876543 3344444

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=99.57  E-value=1.1e-14  Score=132.41  Aligned_cols=71  Identities=25%  Similarity=0.424  Sum_probs=63.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++|||+|||.++||++|+++|++||.|++|+|+.++ +    |+++|||||+|.+.++|++||+.|||+.|....
T Consensus         3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~----g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~   74 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVT----GQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKT   74 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCC----CccceEEEEEECcHHHHHHHHhhcccEEECCee
Confidence            5799999999999999999999999999999999987 3    334459999999999999999999998887543

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

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

Probab=99.54  E-value=3e-14  Score=134.00  Aligned_cols=91  Identities=23%  Similarity=0.271  Sum_probs=83.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      ...+.|||+.||.++.|+||..||++.|.|-++||+.|+ +    |+++|||||.|-+.++|++||+.||+++|.-.+.+
T Consensus        81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~s----G~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~i  156 (506)
T KOG0117|consen   81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFS----GDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLL  156 (506)
T ss_pred             CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccC----CCCcceEEEEeecHHHHHHHHHHhhCccccCCCEe
Confidence            457899999999999999999999999999999999997 4    44555999999999999999999999999988887


Q ss_pred             eEEEEecccccccCcc
Q 026648          209 LVVFYQIACEYISDKI  224 (235)
Q Consensus       209 ~~~~~~~~~~~~~~~~  224 (235)
                      -|++...||..+.++|
T Consensus       157 gvc~Svan~RLFiG~I  172 (506)
T KOG0117|consen  157 GVCVSVANCRLFIGNI  172 (506)
T ss_pred             EEEEeeecceeEeccC
Confidence            7888888999999887

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

Probab=99.54  E-value=2.8e-14  Score=111.71  Aligned_cols=88  Identities=23%  Similarity=0.397  Sum_probs=77.0

Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          124 EVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       124 ~~~~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      ...+||+.+..|||+|||+++|.|++.+||.+||.|..|||-..+. .+ |    -|||.|++..+|.+|++.|+|+.+.
T Consensus        10 ~~rlppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~-Tr-G----TAFVVYedi~dAk~A~dhlsg~n~~   83 (124)
T KOG0114|consen   10 NIRLPPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE-TR-G----TAFVVYEDIFDAKKACDHLSGYNVD   83 (124)
T ss_pred             CCCCChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC-cC-c----eEEEEehHhhhHHHHHHHhcccccC
Confidence            3457788889999999999999999999999999999999998872 12 4    9999999999999999999999887


Q ss_pred             eeeeceEEEEecccc
Q 026648          204 ICLSNLVVFYQIACE  218 (235)
Q Consensus       204 ~~r~~~~~~~~~~~~  218 (235)
                       .+++++++|+.+.+
T Consensus        84 -~ryl~vlyyq~~~~   97 (124)
T KOG0114|consen   84 -NRYLVVLYYQPEDA   97 (124)
T ss_pred             -CceEEEEecCHHHH
Confidence             47888888886543

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

Probab=99.52  E-value=1.6e-14  Score=116.80  Aligned_cols=70  Identities=20%  Similarity=0.358  Sum_probs=65.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++||||+||++.++||+|.+||+++|.|+.|-|-.++ ++.+.|    ||||+|.+.++|+.|++.++|++++.
T Consensus        35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCG----FCFVeyy~~~dA~~AlryisgtrLdd  105 (153)
T KOG0121|consen   35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCG----FCFVEYYSRDDAEDALRYISGTRLDD  105 (153)
T ss_pred             hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccc----eEEEEEecchhHHHHHHHhccCcccc
Confidence            47899999999999999999999999999999999998 555555    99999999999999999999999985

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

Probab=99.44  E-value=1.5e-13  Score=116.21  Aligned_cols=70  Identities=23%  Similarity=0.407  Sum_probs=63.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .++|||+||+..+++.||+.+|..||.|.+|-|...+    .|    ||||||+++.+|+.|+..|+|.+|..++..|
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP----PG----fAFVEFed~RDA~DAvr~LDG~~~cG~r~rV   79 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP----PG----FAFVEFEDPRDAEDAVRYLDGKDICGSRIRV   79 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC----CC----ceEEeccCcccHHHHHhhcCCccccCceEEE
Confidence            4799999999999999999999999999999888754    24    9999999999999999999999998877654

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

Probab=99.44  E-value=8.5e-13  Score=116.45  Aligned_cols=78  Identities=28%  Similarity=0.406  Sum_probs=68.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      .++|-|.|||.+++|++|++||.+||.|.+|.|+.++ ++..+|    ||||.|.++++|++||+.|||+-++    +|.
T Consensus       189 ~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kG----FAFVtF~sRddA~rAI~~LnG~gyd----~LI  260 (270)
T KOG0122|consen  189 EATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKG----FAFVTFESRDDAARAIADLNGYGYD----NLI  260 (270)
T ss_pred             cceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccc----eEEEEEecHHHHHHHHHHccCcccc----eEE
Confidence            6899999999999999999999999999999999998 544444    9999999999999999999999888    455


Q ss_pred             EEEeccc
Q 026648          211 VFYQIAC  217 (235)
Q Consensus       211 ~~~~~~~  217 (235)
                      +-.+|..
T Consensus       261 LrvEwsk  267 (270)
T KOG0122|consen  261 LRVEWSK  267 (270)
T ss_pred             EEEEecC
Confidence            5555543

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.42  E-value=6.9e-13  Score=94.16  Aligned_cols=66  Identities=23%  Similarity=0.434  Sum_probs=57.7

Q ss_pred             EEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       135 LfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      |||+|||+++++++|.++|+.||.|.++++..++.+    .++++|||+|.++++|++|++.++|..+..
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~----~~~~~a~v~f~~~~~a~~al~~~~~~~~~g   66 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDG----QSRGFAFVEFSSEEDAKRALELLNGKEIDG   66 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTS----SEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeecc----ccCCEEEEEeCCHHHHHHHHHHCCCcEECC
Confidence            799999999999999999999999999999988642    444599999999999999999999888764

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 ....

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

Probab=99.41  E-value=1.2e-12  Score=125.04  Aligned_cols=79  Identities=15%  Similarity=0.257  Sum_probs=67.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      +..++|||+|||..+|+++|+++|+.||.|+.++|+.++ ++    .++|||||+|.+.++|+.|++.|+|+.|......
T Consensus       293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g----~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~  368 (509)
T TIGR01642       293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATG----LSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLH  368 (509)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCC----CcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence            345799999999999999999999999999999999886 43    3344999999999999999999999999865544


Q ss_pred             eEEE
Q 026648          209 LVVF  212 (235)
Q Consensus       209 ~~~~  212 (235)
                      +..+
T Consensus       369 v~~a  372 (509)
T TIGR01642       369 VQRA  372 (509)
T ss_pred             EEEC
Confidence            4444

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

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

Probab=99.41  E-value=4.5e-13  Score=132.15  Aligned_cols=162  Identities=11%  Similarity=0.088  Sum_probs=106.5

Q ss_pred             CCCccCCCccccccCCcCCCcccCcccccchhhhhhcCC--CcCCCCCCCC-CcccCCCCCCCCCCCCccccCCCCCCCC
Q 026648           34 SGHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQ--ISSYSGGQSA-RHMSGGMPSRPVDDPRIVGIGGMDPGPS  110 (235)
Q Consensus        34 ~~~~~~~y~~~~~~r~~~~~~~~~~~~~~~~~~y~~~~~--~~s~~~g~~~-r~~gGg~~G~~~~~r~~~g~gg~~~~~~  110 (235)
                      +..+++.=-+++.|.. |-.|++.+.+.+..+.  .+++  |+.|.+.+.+ +++. .|+|..+.++.+.......   .
T Consensus       115 Lp~~~tEe~Lr~lF~~-fG~I~sV~I~~D~~Tg--kskGfAFVeF~s~e~A~~Ai~-~lnG~~i~GR~IkV~rp~~---~  187 (612)
T TIGR01645       115 ISFELREDTIRRAFDP-FGPIKSINMSWDPATG--KHKGFAFVEYEVPEAAQLALE-QMNGQMLGGRNIKVGRPSN---M  187 (612)
T ss_pred             CCCCCCHHHHHHHHHc-cCCEEEEEEeecCCCC--CcCCeEEEEeCcHHHHHHHHH-hcCCeEEecceeeeccccc---c
Confidence            3444554445554433 5556666666655443  4554  6777776444 5665 7888888888764321100   0


Q ss_pred             CCCCcCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHH
Q 026648          111 AKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAH  189 (235)
Q Consensus       111 ~~~r~~g~~~~~p~~~~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~  189 (235)
                      +....  ..   ..........++|||+|||.++++++|+++|+.||.|++|+|+.++ ++..+|    ||||+|++.++
T Consensus       188 p~a~~--~~---~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKG----fGFVeFe~~e~  258 (612)
T TIGR01645       188 PQAQP--II---DMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKG----YGFIEYNNLQS  258 (612)
T ss_pred             ccccc--cc---ccccccccccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCC----eEEEEECCHHH
Confidence            00000  00   0000111234799999999999999999999999999999999987 333334    99999999999


Q ss_pred             HHHHHHHhcCceEeeeeeceEE
Q 026648          190 AATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       190 A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      |.+||+.|||+.|..-...++.
T Consensus       259 A~kAI~amNg~elgGr~LrV~k  280 (612)
T TIGR01645       259 QSEAIASMNLFDLGGQYLRVGK  280 (612)
T ss_pred             HHHHHHHhCCCeeCCeEEEEEe
Confidence            9999999999988754444443

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.

>smart00362 RRM_2 RNA recognition motif

Probab=99.40  E-value=2.2e-12  Score=88.51  Aligned_cols=67  Identities=28%  Similarity=0.425  Sum_probs=59.7

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +|||+|||..+++++|+++|++||.|.++++..++ +    .+.++|||+|.+.++|+.|++.|+|..+...
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~-~----~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~   67 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT-G----KSKGFAFVEFESEEDAEKAIEALNGTKLGGR   67 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC-C----CCCceEEEEeCCHHHHHHHHHHhCCcEECCE
Confidence            59999999999999999999999999999999876 2    2334999999999999999999999887653

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

Probab=99.35  E-value=1e-12  Score=115.30  Aligned_cols=78  Identities=18%  Similarity=0.196  Sum_probs=64.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      -++|||++|+++++.|+|++.|++||+|+++.|+.|+ +++++|    |+||.|.+.+.|++|++.-+ -.|+..+.++.
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskG----yGfVTf~d~~aa~rAc~dp~-piIdGR~aNcn   86 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKG----YGFVTFRDAEAATRACKDPN-PIIDGRKANCN   86 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccc----eeeEEeecHHHHHHHhcCCC-Ccccccccccc
Confidence            3689999999999999999999999999999999999 544444    99999999999999987533 34555555666


Q ss_pred             EEEe
Q 026648          211 VFYQ  214 (235)
Q Consensus       211 ~~~~  214 (235)
                      +++=
T Consensus        87 lA~l   90 (247)
T KOG0149|consen   87 LASL   90 (247)
T ss_pred             hhhh
Confidence            5544

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

Probab=99.35  E-value=2.5e-12  Score=117.48  Aligned_cols=79  Identities=20%  Similarity=0.243  Sum_probs=71.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      .-+.|+|.||||...|.||+.+|++||.|.+|.|+..+.+++ |    |+||.|++.++|++|.++|||..|...+.+|.
T Consensus        95 ~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSK-G----FGFVTmen~~dadRARa~LHgt~VEGRkIEVn  169 (376)
T KOG0125|consen   95 TPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSK-G----FGFVTMENPADADRARAELHGTVVEGRKIEVN  169 (376)
T ss_pred             CCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCC-c----cceEEecChhhHHHHHHHhhcceeeceEEEEe
Confidence            347899999999999999999999999999999999985544 3    99999999999999999999999998888887


Q ss_pred             EEEe
Q 026648          211 VFYQ  214 (235)
Q Consensus       211 ~~~~  214 (235)
                      ++..
T Consensus       170 ~ATa  173 (376)
T KOG0125|consen  170 NATA  173 (376)
T ss_pred             ccch
Confidence            6543

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

Probab=99.35  E-value=3.6e-12  Score=120.30  Aligned_cols=78  Identities=21%  Similarity=0.287  Sum_probs=66.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      .++|||+|||.++|+++|+++|++||.|++|+|+.++..   |+++|||||+|.+.++|++|++.|||+.|......|.+
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            579999999999999999999999999999999998721   33444999999999999999999999988764444444


Q ss_pred             E
Q 026648          212 F  212 (235)
Q Consensus       212 ~  212 (235)
                      +
T Consensus       263 a  263 (457)
T TIGR01622       263 A  263 (457)
T ss_pred             c
Confidence            3

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

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

Probab=99.35  E-value=6.9e-13  Score=124.60  Aligned_cols=86  Identities=26%  Similarity=0.377  Sum_probs=75.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc-eEeeeee-ce
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ-SNIICLS-NL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~-~i~~~r~-~~  209 (235)
                      ..+|||+.|+..+||.|++++|++||.|++|+|+++..+..+|    ||||.|.+++.|..||++|||. ++..|.. ++
T Consensus       124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRG----caFV~fstke~A~~Aika~ng~~tmeGcs~PLV  199 (510)
T KOG0144|consen  124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRG----CAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLV  199 (510)
T ss_pred             chhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccc----eeEEEEehHHHHHHHHHhhccceeeccCCCceE
Confidence            4689999999999999999999999999999999998554445    9999999999999999999997 6888996 55


Q ss_pred             EEEEeccccccc
Q 026648          210 VVFYQIACEYIS  221 (235)
Q Consensus       210 ~~~~~~~~~~~~  221 (235)
                      +.|+|-.+++..
T Consensus       200 VkFADtqkdk~~  211 (510)
T KOG0144|consen  200 VKFADTQKDKDG  211 (510)
T ss_pred             EEecccCCCchH
Confidence            669996555543

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.35  E-value=4.2e-12  Score=113.62  Aligned_cols=66  Identities=21%  Similarity=0.316  Sum_probs=59.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++|||+|||+.+||++|+++|+.||.|++|+|+.++.  .+|    ||||+|.++++|+.|+ .|+|..|..
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~--~~G----fAFVtF~d~eaAe~Al-lLnG~~l~g   69 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE--RSQ----IAYVTFKDPQGAETAL-LLSGATIVD   69 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC--CCC----EEEEEeCcHHHHHHHH-HhcCCeeCC
Confidence            47999999999999999999999999999999998863  224    9999999999999999 499998875

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

Probab=99.34  E-value=3e-12  Score=126.39  Aligned_cols=74  Identities=16%  Similarity=0.248  Sum_probs=64.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .++|||+|||+++++++|+++|++||.|++|+|+.++ +++.    +|||||+|.+.++|++|++.|||..|......+
T Consensus       107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~Tgks----kGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV  181 (612)
T TIGR01645       107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKH----KGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKV  181 (612)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCc----CCeEEEEeCcHHHHHHHHHhcCCeEEecceeee
Confidence            5799999999999999999999999999999999987 4333    349999999999999999999999887644333

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.

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

Probab=99.34  E-value=1.1e-12  Score=112.24  Aligned_cols=74  Identities=24%  Similarity=0.450  Sum_probs=66.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      +++|||+|||.++.|.||++||.+||.|.+|.|.....      +.+||||+|+++.+|+.||..-+||.++.|+..+-+
T Consensus         6 ~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g------~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEf   79 (241)
T KOG0105|consen    6 SRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPG------PPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEF   79 (241)
T ss_pred             cceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCC------CCCeeEEEecCccchhhhhhcccccccCcceEEEEe
Confidence            57999999999999999999999999999999876652      233999999999999999999999999999976654

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

Probab=99.32  E-value=6.7e-12  Score=122.06  Aligned_cols=72  Identities=24%  Similarity=0.374  Sum_probs=63.3

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +|||+|||.++||++|+++|++||.|++|+|.+++ +++    ++|||||+|.+.++|++|++.|++..|......+
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   74 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRR----SLGYGYVNFQNPADAERALETMNFKRLGGKPIRI   74 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCC----cceEEEEEECCHHHHHHHHHHhCCCEECCeeEEe
Confidence            79999999999999999999999999999999997 333    3449999999999999999999998877644333

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

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

Probab=99.32  E-value=4.1e-12  Score=119.45  Aligned_cols=86  Identities=23%  Similarity=0.460  Sum_probs=74.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee-ec
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL-SN  208 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r-~~  208 (235)
                      ..-+|||+-+|...+|+||+++|++||.|.+|.|++|| ++.++|    ||||.|.++++|.+|+.+|++.+..-.- ..
T Consensus        33 ~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~g----cCFv~~~trk~a~~a~~Alhn~ktlpG~~~p  108 (510)
T KOG0144|consen   33 SAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKG----CCFVKYYTRKEADEAINALHNQKTLPGMHHP  108 (510)
T ss_pred             hhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccc----eEEEEeccHHHHHHHHHHhhcccccCCCCcc
Confidence            34689999999999999999999999999999999999 554445    9999999999999999999999876644 34


Q ss_pred             e-EEEEecccccc
Q 026648          209 L-VVFYQIACEYI  220 (235)
Q Consensus       209 ~-~~~~~~~~~~~  220 (235)
                      + +.++|.+++++
T Consensus       109 vqvk~Ad~E~er~  121 (510)
T KOG0144|consen  109 VQVKYADGERERI  121 (510)
T ss_pred             eeecccchhhhcc
Confidence            5 44999998886

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

Probab=99.29  E-value=1.1e-11  Score=120.45  Aligned_cols=79  Identities=19%  Similarity=0.276  Sum_probs=66.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      ..++|||+|||.++|+++|+++|++||.|++|+++.+..+..+|    ||||+|.+.++|++|++.|||+.+.. +.+.|
T Consensus       284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g----~gfV~f~~~~~A~~A~~~~~g~~~~g-k~l~V  358 (562)
T TIGR01628       284 QGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRG----FGFVCFSNPEEANRAVTEMHGRMLGG-KPLYV  358 (562)
T ss_pred             CCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCC----eEEEEeCCHHHHHHHHHHhcCCeeCC-ceeEE
Confidence            35789999999999999999999999999999999997544444    99999999999999999999987764 33334


Q ss_pred             EEEe
Q 026648          211 VFYQ  214 (235)
Q Consensus       211 ~~~~  214 (235)
                      -+++
T Consensus       359 ~~a~  362 (562)
T TIGR01628       359 ALAQ  362 (562)
T ss_pred             Eecc
Confidence            3443

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=99.29  E-value=1.2e-11  Score=116.73  Aligned_cols=70  Identities=21%  Similarity=0.306  Sum_probs=62.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ..++|||+|||.++++++|+++|++||.|.+|+|+.++ ++    +++|||||+|.+.++|++||. |+|..+...
T Consensus        88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~----~skg~afVeF~~~e~A~~Al~-l~g~~~~g~  158 (457)
T TIGR01622        88 DDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSR----RSKGVAYVEFYDVESVIKALA-LTGQMLLGR  158 (457)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCC----CcceEEEEEECCHHHHHHHHH-hCCCEECCe
Confidence            46899999999999999999999999999999999987 33    344499999999999999996 899887753

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.

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

Probab=99.29  E-value=1.2e-11  Score=111.84  Aligned_cols=73  Identities=22%  Similarity=0.254  Sum_probs=66.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      |+-+||||+-|+.+++|.+|++.|+.||.|+.|+||.++ ++.    |+|||||+|+++.+...|.+..+|.+|+.-+
T Consensus        99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgk----skGYAFIeye~erdm~~AYK~adG~~Idgrr  172 (335)
T KOG0113|consen   99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGK----SKGYAFIEYEHERDMKAAYKDADGIKIDGRR  172 (335)
T ss_pred             CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCC----ccceEEEEeccHHHHHHHHHhccCceecCcE
Confidence            456899999999999999999999999999999999998 544    4449999999999999999999999999633

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

Probab=99.27  E-value=2e-11  Score=102.24  Aligned_cols=71  Identities=31%  Similarity=0.458  Sum_probs=63.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++|||+|||.++|+++|+++|.+||.|..++++.++ .+    .++|||||+|.+.++|..|++.++|..+..-+
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~----~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~  186 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETG----KSRGFAFVEFESEESAEKAIEELNGKELEGRP  186 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccC----ccCceEEEEecCHHHHHHHHHHcCCCeECCce
Confidence            5899999999999999999999999999999999997 43    33449999999999999999999999888633

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.26  E-value=1.7e-11  Score=108.42  Aligned_cols=66  Identities=18%  Similarity=0.236  Sum_probs=59.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..||||+||++.+||++|+++|+.||.|.+|+|+.+. + .+|    ||||+|.+++.|+.|+ .|+|..|..
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~-e-t~g----fAfVtF~d~~aaetAl-lLnGa~l~d   70 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG-E-YAC----TAYVTFKDAYALETAV-LLSGATIVD   70 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC-C-cce----EEEEEECCHHHHHHHH-hcCCCeeCC
Confidence            4799999999999999999999999999999999885 2 223    9999999999999999 789998875

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

Probab=99.26  E-value=1.9e-11  Score=120.28  Aligned_cols=71  Identities=21%  Similarity=0.288  Sum_probs=64.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCC--CCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPF--VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~f--G~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .++|||+|||.++|+++|+++|++|  |.|++|+++.       +    ||||+|+++++|++|++.|||++|..+...+
T Consensus       233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r-------g----fAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V  301 (578)
T TIGR01648       233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR-------D----YAFVHFEDREDAVKAMDELNGKELEGSEIEV  301 (578)
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec-------C----eEEEEeCCHHHHHHHHHHhCCCEECCEEEEE
Confidence            5789999999999999999999999  9999998763       3    9999999999999999999999999877777


Q ss_pred             EEEE
Q 026648          210 VVFY  213 (235)
Q Consensus       210 ~~~~  213 (235)
                      .+.-
T Consensus       302 ~~Ak  305 (578)
T TIGR01648       302 TLAK  305 (578)
T ss_pred             EEcc
Confidence            6653

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=99.25  E-value=5.8e-11  Score=81.79  Aligned_cols=67  Identities=31%  Similarity=0.544  Sum_probs=59.5

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +|+|+|||..+++++|+++|+.||.|..+.+..++.....|    +|||+|.+.++|..|++.+++..+..
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~----~~~v~f~s~~~a~~a~~~~~~~~~~~   67 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKG----FAFVEFEDEEDAEKALEALNGKELGG   67 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcce----EEEEEECCHHHHHHHHHHhCCCeECC
Confidence            58999999999999999999999999999999877332233    99999999999999999999987654

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=99.25  E-value=2.5e-11  Score=116.79  Aligned_cols=64  Identities=17%  Similarity=0.200  Sum_probs=57.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHh--cCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL--QGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~L--nG~~i~~  204 (235)
                      +++|||+|||.+++|++|+++|++||.|.+|+|+.++     |    ||||+|++.++|++|++.|  ++..|..
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k-----~----~afVef~~~e~A~~Ai~~~~~~~~~l~g   67 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGK-----R----QALVEFEDEESAKACVNFATSVPIYIRG   67 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCC-----C----EEEEEeCchHHHHHHHHHhhcCCceEcC
Confidence            6899999999999999999999999999999999754     4    9999999999999999975  5555554

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).

>smart00360 RRM RNA recognition motif

Probab=99.25  E-value=3.7e-11  Score=81.94  Aligned_cols=65  Identities=32%  Similarity=0.483  Sum_probs=56.7

Q ss_pred             EcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          137 VEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       137 VgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      |+|||..+++++|+++|++||.|.++++..++.   .+.++++|||+|.+.++|..|++.|++..+..
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~---~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~   65 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKD---TGKSKGFAFVEFESEEDAEKALEALNGKELDG   65 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCC---CCCCCceEEEEeCCHHHHHHHHHHcCCCeeCC
Confidence            689999999999999999999999999998762   12344499999999999999999999887753

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

Probab=99.25  E-value=3.1e-11  Score=116.10  Aligned_cols=73  Identities=16%  Similarity=0.268  Sum_probs=64.3

Q ss_pred             CCCeEEEcCCCC-CCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~-~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ++++|||+|||. .+|+++|++||++||.|.+|+|+.++   + |    ||||+|.+.++|+.|++.|||..|......+
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 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK---K-E----TALIEMADPYQAQLALTHLNGVKLFGKPLRV  345 (481)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC---C-C----EEEEEECCHHHHHHHHHHhCCCEECCceEEE
Confidence            468999999998 69999999999999999999999874   2 4    9999999999999999999999998755444


Q ss_pred             EE
Q 026648          210 VV  211 (235)
Q Consensus       210 ~~  211 (235)
                      ..
T Consensus       346 ~~  347 (481)
T TIGR01649       346 CP  347 (481)
T ss_pred             EE
Confidence            43

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).

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

Probab=99.22  E-value=3.5e-11  Score=107.55  Aligned_cols=70  Identities=26%  Similarity=0.422  Sum_probs=64.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .+.|.|..||.++|++||+.||+..|+|++|+|++||   ..|+++||+||.|.++++|++||..|||.++..
T Consensus        41 kTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDK---itGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~  110 (360)
T KOG0145|consen   41 KTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDK---ITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQN  110 (360)
T ss_pred             cceeeeeecccccCHHHHHHHhhcccceeeeeeeecc---ccccccccceeeecChHHHHHHHhhhcceeecc
Confidence            5789999999999999999999999999999999999   236677799999999999999999999988764

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

Probab=99.22  E-value=1.3e-11  Score=111.49  Aligned_cols=87  Identities=24%  Similarity=0.331  Sum_probs=70.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEEE
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVF  212 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~~  212 (235)
                      -+|||+|||.++++.+|+.||++||+|++|.|+++           |+||..++...|+.||..|+||+|..  .++.+=
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN-----------YgFVHiEdktaaedairNLhgYtLhg--~nInVe   69 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN-----------YGFVHIEDKTAAEDAIRNLHGYTLHG--VNINVE   69 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeeeeecc-----------cceEEeecccccHHHHhhcccceecc--eEEEEE
Confidence            37999999999999999999999999999999976           99999999999999999999999985  333333


Q ss_pred             EecccccccCccee-ecceee
Q 026648          213 YQIACEYISDKICV-HIKFLC  232 (235)
Q Consensus       213 ~~~~~~~~~~~~~~-~~~~~~  232 (235)
                      .--|+-+..+++|| -|+|-|
T Consensus        70 aSksKsk~stkl~vgNis~tc   90 (346)
T KOG0109|consen   70 ASKSKSKASTKLHVGNISPTC   90 (346)
T ss_pred             eccccCCCccccccCCCCccc
Confidence            33244346677776 355555

>PLN03213 repressor of silencing 3; Provisional

Probab=99.18  E-value=6.4e-11  Score=113.23  Aligned_cols=73  Identities=19%  Similarity=0.276  Sum_probs=62.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCH--HHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP--AHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~--~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ..+||||||++++|++||+.+|++||.|++|.|++..+  + |    ||||+|.+.  .++.+||+.|||.++......|
T Consensus        10 gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETG--R-G----FAFVEMssdddaEeeKAISaLNGAEWKGR~LKV   82 (759)
T PLN03213         10 GVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKG--R-S----FAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRL   82 (759)
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccC--C-c----eEEEEecCCcHHHHHHHHHHhcCCeecCceeEE
Confidence            46899999999999999999999999999999995443  3 3    999999987  7899999999999988755444


Q ss_pred             EE
Q 026648          210 VV  211 (235)
Q Consensus       210 ~~  211 (235)
                      ..
T Consensus        83 NK   84 (759)
T PLN03213         83 EK   84 (759)
T ss_pred             ee
Confidence            43

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

Probab=99.17  E-value=1e-11  Score=110.93  Aligned_cols=160  Identities=19%  Similarity=0.346  Sum_probs=104.7

Q ss_pred             CCCCCCCccCCCcccc----ccCCcCCCcccCcccccchhhh-hhcCC--CcCCCC-CCCCCcccCCCCCCCCCCCCccc
Q 026648           30 YDVPSGHELSSYYTRD----DDRGALRGMRDTDSLGASYDRY-LRSAQ--ISSYSG-GQSARHMSGGMPSRPVDDPRIVG  101 (235)
Q Consensus        30 ~~~~~~~~~~~y~~~~----~~r~~~~~~~~~~~~~~~~~~y-~~~~~--~~s~~~-g~~~r~~gGg~~G~~~~~r~~~g  101 (235)
                      -+..-.+-+.+||||.    +.|.-+.++-+.++.--.-|.- .+|=+  |+-|-. .++-+++. -++|.-+-      
T Consensus        37 t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~Ain-tlNGLrLQ------  109 (360)
T KOG0145|consen   37 TDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAIN-TLNGLRLQ------  109 (360)
T ss_pred             cCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHh-hhcceeec------
Confidence            3445678899999985    5666666665554433222210 11111  222222 23333443 33332221      


Q ss_pred             cCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEE
Q 026648          102 IGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILC  180 (235)
Q Consensus       102 ~gg~~~~~~~~~r~~g~~~~~p~~~~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~fa  180 (235)
                                 .+.+..+-.+|....-.  ...|||.+||..+|+.||+++|++||.|..-||..|. ++..+|    .+
T Consensus       110 -----------~KTIKVSyARPSs~~Ik--~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srG----Vg  172 (360)
T KOG0145|consen  110 -----------NKTIKVSYARPSSDSIK--DANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRG----VG  172 (360)
T ss_pred             -----------cceEEEEeccCChhhhc--ccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecc----ee
Confidence                       23333333344333333  3589999999999999999999999999999999998 544444    99


Q ss_pred             EEEecCHHHHHHHHHHhcCceEeeeeeceEE-EE
Q 026648          181 FVDFVSPAHAATAMDALQGQSNIICLSNLVV-FY  213 (235)
Q Consensus       181 FVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~-~~  213 (235)
                      ||.|+.+.+|+.||..|||.+-..|-..+.| |+
T Consensus       173 FiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFa  206 (360)
T KOG0145|consen  173 FIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFA  206 (360)
T ss_pred             EEEecchhHHHHHHHhccCCCCCCCCCCeEEEec
Confidence            9999999999999999999999999887755 44

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

Probab=99.16  E-value=4.1e-11  Score=103.99  Aligned_cols=76  Identities=21%  Similarity=0.302  Sum_probs=67.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      -.+|-|-||.+.+|.++|+.+|++||.|-+|.|+.|+ ++...|    ||||.|....+|+.|+++|+|..|+.-.+.|+
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRg----FaFVrf~~k~daedA~damDG~~ldgRelrVq   88 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRG----FAFVRFHDKRDAEDALDAMDGAVLDGRELRVQ   88 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccc----eeEEEeeecchHHHHHHhhcceeeccceeeeh
Confidence            4689999999999999999999999999999999998 655555    99999999999999999999999997544444


Q ss_pred             E
Q 026648          211 V  211 (235)
Q Consensus       211 ~  211 (235)
                      +
T Consensus        89 ~   89 (256)
T KOG4207|consen   89 M   89 (256)
T ss_pred             h
Confidence            3

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

Probab=99.16  E-value=4.9e-11  Score=112.60  Aligned_cols=69  Identities=19%  Similarity=0.277  Sum_probs=63.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEEE
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVF  212 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~~  212 (235)
                      +.|||+||+.++|||.|+++|++||.|.+|+.++|           ||||.|.++++|.+|++.+||+.|+.--..++++
T Consensus       260 KvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD-----------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLA  328 (506)
T KOG0117|consen  260 KVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD-----------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLA  328 (506)
T ss_pred             eeeeeeccchhhhHHHHHHHHHhccceEEeecccc-----------eeEEeecchHHHHHHHHHhcCceecCceEEEEec
Confidence            67999999999999999999999999999998866           9999999999999999999999999866666664

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

Probab=99.10  E-value=1.2e-10  Score=99.25  Aligned_cols=79  Identities=15%  Similarity=0.142  Sum_probs=66.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      +...||||+||+..+|++-|.+||-+.|.|+.++++.++ .....|    ||||||.++++|+-|++.||..+++.....
T Consensus         7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qG----ygF~Ef~~eedadYAikiln~VkLYgrpIr   82 (203)
T KOG0131|consen    7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQG----YGFAEFRTEEDADYAIKILNMVKLYGRPIR   82 (203)
T ss_pred             CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccc----eeEEEEechhhhHHHHHHHHHHHhcCceeE
Confidence            345799999999999999999999999999999999999 432334    999999999999999999998777764444


Q ss_pred             eEEE
Q 026648          209 LVVF  212 (235)
Q Consensus       209 ~~~~  212 (235)
                      +..+
T Consensus        83 v~ka   86 (203)
T KOG0131|consen   83 VNKA   86 (203)
T ss_pred             EEec
Confidence            4333

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

Probab=99.07  E-value=2e-10  Score=103.09  Aligned_cols=86  Identities=29%  Similarity=0.400  Sum_probs=74.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee-ee-ece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII-CL-SNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~-~r-~~~  209 (235)
                      .++|||+.|...-+|||++.+|.+||.|.+|.+.+...+..+|    |+||.|.+..+|..||.+|+|.+.-- .. +++
T Consensus        19 drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKG----CAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLV   94 (371)
T KOG0146|consen   19 DRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKG----CAFVKFSSHAEAQAAINALHGSQTMPGASSSLV   94 (371)
T ss_pred             chhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCC----ceEEEeccchHHHHHHHHhcccccCCCCccceE
Confidence            4799999999999999999999999999999999998766666    99999999999999999999986433 33 577


Q ss_pred             EEEEeccccccc
Q 026648          210 VVFYQIACEYIS  221 (235)
Q Consensus       210 ~~~~~~~~~~~~  221 (235)
                      +.|.|-.+|-..
T Consensus        95 VK~ADTdkER~l  106 (371)
T KOG0146|consen   95 VKFADTDKERTL  106 (371)
T ss_pred             EEeccchHHHHH
Confidence            889996666443

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

Probab=99.06  E-value=1.6e-10  Score=108.49  Aligned_cols=132  Identities=18%  Similarity=0.197  Sum_probs=94.9

Q ss_pred             CccCCCcccccc-----CCcCCCcccCcccccchhhhhhcCCCcCCCCCCCCCcccCCCCCCCCCCCCccccCCCCCCCC
Q 026648           36 HELSSYYTRDDD-----RGALRGMRDTDSLGASYDRYLRSAQISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPS  110 (235)
Q Consensus        36 ~~~~~y~~~~~~-----r~~~~~~~~~~~~~~~~~~y~~~~~~~s~~~g~~~r~~gGg~~G~~~~~r~~~g~gg~~~~~~  110 (235)
                      ++||.=++-|-|     -..-+.+||+ +  +.-..|++..     ...++.+|+- .|+...+.+..++.. ...+   
T Consensus         8 ~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~-----~~~da~~A~~-~~n~~~~~~~~~rim-~s~r---   74 (369)
T KOG0123|consen    8 PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQ-----QPADAERALD-TMNFDVLKGKPIRIM-WSQR---   74 (369)
T ss_pred             CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecC-----CHHHHHHHHH-HcCCcccCCcEEEee-hhcc---
Confidence            455555555533     2345778888 5  5555555543     2246677887 788777777654322 2111   


Q ss_pred             CCCCcCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHH
Q 026648          111 AKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHA  190 (235)
Q Consensus       111 ~~~r~~g~~~~~p~~~~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A  190 (235)
                                         ++ ..|||.||+.+++.++|.++|+.||.|++|+|..++.+.+ |    | ||+|++++.|
T Consensus        75 -------------------d~-~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~k-g----~-FV~f~~e~~a  128 (369)
T KOG0123|consen   75 -------------------DP-SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSK-G----Y-FVQFESEESA  128 (369)
T ss_pred             -------------------CC-ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCce-e----e-EEEeCCHHHH
Confidence                               11 1299999999999999999999999999999999996533 3    9 9999999999


Q ss_pred             HHHHHHhcCceEeeee
Q 026648          191 ATAMDALQGQSNIICL  206 (235)
Q Consensus       191 ~~Ai~~LnG~~i~~~r  206 (235)
                      .+||+.|||..+....
T Consensus       129 ~~ai~~~ng~ll~~kk  144 (369)
T KOG0123|consen  129 KKAIEKLNGMLLNGKK  144 (369)
T ss_pred             HHHHHHhcCcccCCCe
Confidence            9999999988666543

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

Probab=99.06  E-value=2.8e-11  Score=103.14  Aligned_cols=69  Identities=17%  Similarity=0.394  Sum_probs=63.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +..|||+|||++.||.||--+|++||.|+.|.|++|+ +    |+++||||..|++.....-|+..|||.+|..
T Consensus        35 sA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~T----GKSKGFaFLcYEDQRSTILAVDN~NGiki~g  104 (219)
T KOG0126|consen   35 SAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKT----GKSKGFAFLCYEDQRSTILAVDNLNGIKILG  104 (219)
T ss_pred             ceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCC----CcccceEEEEecCccceEEEEeccCCceecc
Confidence            5689999999999999999999999999999999998 4    4455599999999999999999999999986

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

Probab=99.05  E-value=2.6e-10  Score=109.78  Aligned_cols=149  Identities=20%  Similarity=0.276  Sum_probs=101.9

Q ss_pred             CCCcccCcccccchhhhhhcCC--CcCCCCCCCCCcccCCCCCCCCCCCCccccCC-CC----CCCCCCCCcCCCCCCCC
Q 026648           51 LRGMRDTDSLGASYDRYLRSAQ--ISSYSGGQSARHMSGGMPSRPVDDPRIVGIGG-MD----PGPSAKDRALGLGGGRS  123 (235)
Q Consensus        51 ~~~~~~~~~~~~~~~~y~~~~~--~~s~~~g~~~r~~gGg~~G~~~~~r~~~g~gg-~~----~~~~~~~r~~g~~~~~p  123 (235)
                      .-.|||...|++-..+  ++++  ++-|-+.++-.-+- ++.|..+.+-++|..-. +.    ...++.-.+.++.    
T Consensus       203 ~gkVrdVriI~Dr~s~--rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~sEaeknr~a~~s~a~~~k~~~----  275 (549)
T KOG0147|consen  203 VGKVRDVRIIGDRNSR--RSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQLSEAEKNRAANASPALQGKGFT----  275 (549)
T ss_pred             hcCcceeEeeccccch--hhcceeEEEEecccchhhHh-hhcCCcccCceeEecccHHHHHHHHhccccccccccc----
Confidence            3568999999988885  7776  45555555543222 56776665555554211 00    0001101111111    


Q ss_pred             CCCCCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceE
Q 026648          124 EVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSN  202 (235)
Q Consensus       124 ~~~~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i  202 (235)
                         .|   -..|||+||.+++++++|+.+|++||.|..|.+..+. ++..+|    |+||+|.+.++|.+|+++|||++|
T Consensus       276 ---~p---~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skg----fGfi~f~~~~~ar~a~e~lngfel  345 (549)
T KOG0147|consen  276 ---GP---MRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKG----FGFITFVNKEDARKALEQLNGFEL  345 (549)
T ss_pred             ---cc---hhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccC----cceEEEecHHHHHHHHHHhcccee
Confidence               01   1239999999999999999999999999999999996 555555    999999999999999999999877


Q ss_pred             eeeeeceEEEEecc
Q 026648          203 IICLSNLVVFYQIA  216 (235)
Q Consensus       203 ~~~r~~~~~~~~~~  216 (235)
                      -.--.-|+++.+-.
T Consensus       346 AGr~ikV~~v~~r~  359 (549)
T KOG0147|consen  346 AGRLIKVSVVTERV  359 (549)
T ss_pred             cCceEEEEEeeeec
Confidence            76445567776643

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

Probab=99.04  E-value=3.9e-10  Score=104.34  Aligned_cols=75  Identities=17%  Similarity=0.211  Sum_probs=69.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .+.|||..|.+-+|.++|+-||+.||.|.+|.|++++   +.|+++.||||+|++.+++++|.-+|++..|+..|.+|
T Consensus       239 eNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~---ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHV  313 (479)
T KOG0415|consen  239 ENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDR---KTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHV  313 (479)
T ss_pred             cceEEEEecCCcccccchhhHHhhcccceeeeEEecc---cccchhheeeeeecchhhHHHHHhhhcceeeccceEEe
Confidence            4899999999999999999999999999999999998   34789999999999999999999999999999866655

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

Probab=99.02  E-value=8.2e-10  Score=106.62  Aligned_cols=63  Identities=29%  Similarity=0.455  Sum_probs=58.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHh
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDAL  197 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~L  197 (235)
                      ...||||+|||+++||++|.+.|++||.|..+.|+.++ ++++.|    .|||.|.++..|..||++.
T Consensus       291 ~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skG----tAFv~Fkt~~~~~~ci~~A  354 (678)
T KOG0127|consen  291 EGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKG----TAFVKFKTQIAAQNCIEAA  354 (678)
T ss_pred             ccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCccc----ceEEEeccHHHHHHHHHhc
Confidence            34899999999999999999999999999999999999 766666    9999999999999999987

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

Probab=99.02  E-value=5.3e-10  Score=106.76  Aligned_cols=73  Identities=25%  Similarity=0.328  Sum_probs=65.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ++|||||+|++++|++|.++|+..|.|.+++++.|+ +    |+++||+|++|.+.++|+.|++.|||+++......+
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~t----G~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v   92 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRET----GKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRV   92 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccC----CCcCceeeEecCchhhHHHHHHhcCCcccCCceEEe
Confidence            789999999999999999999999999999999998 4    455559999999999999999999999888533333

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

Probab=99.00  E-value=5.8e-10  Score=91.33  Aligned_cols=76  Identities=18%  Similarity=0.289  Sum_probs=65.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      ...|||.++..+.||++|.+.|..||.|+.+.|-.|+ ++--+|    ||.|+|++.++|++|+++|||..|..-...+-
T Consensus        72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KG----YaLvEYet~keAq~A~~~~Ng~~ll~q~v~VD  147 (170)
T KOG0130|consen   72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKG----YALVEYETLKEAQAAIDALNGAELLGQNVSVD  147 (170)
T ss_pred             eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccc----eeeeehHhHHHHHHHHHhccchhhhCCceeEE
Confidence            5789999999999999999999999999999999998 544444    99999999999999999999988775444443


Q ss_pred             E
Q 026648          211 V  211 (235)
Q Consensus       211 ~  211 (235)
                      |
T Consensus       148 w  148 (170)
T KOG0130|consen  148 W  148 (170)
T ss_pred             E
Confidence            3

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

Probab=99.00  E-value=7.5e-10  Score=99.31  Aligned_cols=76  Identities=18%  Similarity=0.261  Sum_probs=65.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      -.+||+-|..+++-|+|++.|.+||+|.++||++|. +.+.+|    |+||.|.++++|+.||+.|||.=|.-.-....|
T Consensus        63 fhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKG----YgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNW  138 (321)
T KOG0148|consen   63 FHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKG----YGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNW  138 (321)
T ss_pred             eeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccc----eeEEeccchHHHHHHHHHhCCeeeccceeeccc
Confidence            469999999999999999999999999999999998 544444    999999999999999999999876643344454


Q ss_pred             E
Q 026648          212 F  212 (235)
Q Consensus       212 ~  212 (235)
                      +
T Consensus       139 A  139 (321)
T KOG0148|consen  139 A  139 (321)
T ss_pred             c
Confidence            3

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

Probab=98.99  E-value=2.8e-10  Score=99.71  Aligned_cols=77  Identities=23%  Similarity=0.398  Sum_probs=67.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC--CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE--SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk--~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      ..+||||++|..+++|.-|...|-+||.|+.|.++.|-  .+||+     |+||+|+-.++|..||..||+.+|...-..
T Consensus         9 ~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRg-----FgFVefe~aEDAaaAiDNMnesEL~Grtir   83 (298)
T KOG0111|consen    9 QKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRG-----FGFVEFEEAEDAAAAIDNMNESELFGRTIR   83 (298)
T ss_pred             cceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccc-----eeEEEeeccchhHHHhhcCchhhhcceeEE
Confidence            36899999999999999999999999999999999997  66665     999999999999999999999888764444


Q ss_pred             eEEE
Q 026648          209 LVVF  212 (235)
Q Consensus       209 ~~~~  212 (235)
                      +.++
T Consensus        84 VN~A   87 (298)
T KOG0111|consen   84 VNLA   87 (298)
T ss_pred             Eeec
Confidence            4443

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

Probab=98.99  E-value=1.2e-09  Score=105.41  Aligned_cols=79  Identities=19%  Similarity=0.290  Sum_probs=66.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      ...|.|+|||+.|.+++|+.+|+.||.|.+|.|++.+++.-.|    ||||.|....+|+.|++.+||.+|+..-..+=|
T Consensus       117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcG----FaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDW  192 (678)
T KOG0127|consen  117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCG----FAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDW  192 (678)
T ss_pred             cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccc----eEEEEEeeHHHHHHHHHhccCceecCceeEEee
Confidence            4689999999999999999999999999999999777322224    999999999999999999999999953334444


Q ss_pred             EEe
Q 026648          212 FYQ  214 (235)
Q Consensus       212 ~~~  214 (235)
                      +.+
T Consensus       193 AV~  195 (678)
T KOG0127|consen  193 AVD  195 (678)
T ss_pred             ecc
Confidence            443

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

Probab=98.96  E-value=2e-09  Score=102.91  Aligned_cols=85  Identities=12%  Similarity=0.156  Sum_probs=65.9

Q ss_pred             CCCeEEEcCCCCC----------CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          131 ASSTLFVEGLPSD----------CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       131 ~~~tLfVgNLP~~----------vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      ++.+|+|.||...          ...++|+++|++||.|++|+|+........+..+|++||+|.+.++|++|+++|||.
T Consensus       408 ~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr  487 (509)
T TIGR01642       408 PTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGR  487 (509)
T ss_pred             CceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCC
Confidence            3578999999642          123689999999999999999876411111223459999999999999999999999


Q ss_pred             eEeeeeeceEEEEecc
Q 026648          201 SNIICLSNLVVFYQIA  216 (235)
Q Consensus       201 ~i~~~r~~~~~~~~~~  216 (235)
                      ++.. +..++.||+.+
T Consensus       488 ~~~g-r~v~~~~~~~~  502 (509)
T TIGR01642       488 KFND-RVVVAAFYGED  502 (509)
T ss_pred             EECC-eEEEEEEeCHH
Confidence            9874 66777788854

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

>PF13893 RRM_5: RNA recognition motif

Probab=98.95  E-value=4.8e-09  Score=71.89  Aligned_cols=53  Identities=25%  Similarity=0.416  Sum_probs=44.9

Q ss_pred             HHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          149 VAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       149 L~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      |.++|++||.|+++++..++    ++    +|||+|.+.++|++|++.|||..+..+...+
T Consensus         1 L~~~f~~fG~V~~i~~~~~~----~~----~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V   53 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK----RG----FAFVEFASVEDAQKAIEQLNGRQFNGRPLKV   53 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS----TT----EEEEEESSHHHHHHHHHHHTTSEETTEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC----CC----EEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            68999999999999998775    24    9999999999999999999999987654333

(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=98.90  E-value=5.1e-09  Score=75.42  Aligned_cols=59  Identities=14%  Similarity=0.077  Sum_probs=47.2

Q ss_pred             HHHHHHhhc----CCCCeEEEE-EeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          146 RREVAHIFR----PFVGYKEVR-LVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       146 eedL~~lF~----~fG~I~~vr-l~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +++|+++|+    +||.|.+|. ++.++.. ..|.++|||||+|.+.++|++|++.|||..+...
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~-~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr   65 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVG-YENHKRGNVYITFERSEDAARAIVDLNGRYFDGR   65 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCC-CCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            678889998    999999995 6666511 0123445999999999999999999999988753

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

Probab=98.86  E-value=2.3e-09  Score=96.29  Aligned_cols=77  Identities=22%  Similarity=0.369  Sum_probs=69.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +.|+|||=.||.+..+.||-.+|-+||.|++.++..|+ +.    .+++|+||.|+++..|+.||.+|||+.|.+.|.-+
T Consensus       284 eGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATN----QSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKV  359 (371)
T KOG0146|consen  284 EGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATN----QSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKV  359 (371)
T ss_pred             CcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccc----cccceeeEecCCchhHHHHHHHhcchhhhhhhhhh
Confidence            47999999999999999999999999999999999998 32    34569999999999999999999999999987655


Q ss_pred             EE
Q 026648          210 VV  211 (235)
Q Consensus       210 ~~  211 (235)
                      .+
T Consensus       360 QL  361 (371)
T KOG0146|consen  360 QL  361 (371)
T ss_pred             hh
Confidence            44

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

Probab=98.79  E-value=4.4e-09  Score=103.88  Aligned_cols=82  Identities=29%  Similarity=0.368  Sum_probs=69.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      .++|.|+|||+..+.++++.||..||.|++|||+...++   +..+|||||+|-++.+|..|+++|.++.++..|.-|-|
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            578999999999999999999999999999999988421   22234999999999999999999999999976555566


Q ss_pred             EEecc
Q 026648          212 FYQIA  216 (235)
Q Consensus       212 ~~~~~  216 (235)
                      .-++|
T Consensus       690 A~~d~  694 (725)
T KOG0110|consen  690 AKSDN  694 (725)
T ss_pred             hccch
Confidence            65544

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

Probab=98.79  E-value=2.9e-08  Score=94.09  Aligned_cols=65  Identities=20%  Similarity=0.270  Sum_probs=57.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++|||+|||+++||..|++-|..||.++.+.|+. .     |+++  +.|.|.++++|+.|+..|+|.+++.
T Consensus       536 a~qIiirNlP~dfTWqmlrDKfre~G~v~yadime-~-----Gksk--GVVrF~s~edAEra~a~Mngs~l~G  600 (608)
T KOG4212|consen  536 ACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME-N-----GKSK--GVVRFFSPEDAERACALMNGSRLDG  600 (608)
T ss_pred             ccEEEEecCCccccHHHHHHHHHhccceehhhhhc-c-----CCcc--ceEEecCHHHHHHHHHHhccCcccC
Confidence            58899999999999999999999999999988843 2     2232  3899999999999999999999886

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

Probab=98.77  E-value=6.2e-09  Score=94.30  Aligned_cols=70  Identities=21%  Similarity=0.304  Sum_probs=65.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      ++++|+|+||.+.|+..||+..|++||.+.++.|+++           |+||.|+-.++|..||+.|+|.++..-+..+.
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            3679999999999999999999999999999999986           99999999999999999999999998887776


Q ss_pred             E
Q 026648          211 V  211 (235)
Q Consensus       211 ~  211 (235)
                      +
T Consensus       146 ~  146 (346)
T KOG0109|consen  146 L  146 (346)
T ss_pred             e
Confidence            5

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

Probab=98.76  E-value=1.4e-08  Score=101.24  Aligned_cols=72  Identities=22%  Similarity=0.407  Sum_probs=63.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      -++|||||.|+..++|.||..+|+.||.|.+|.|+..+     |    ||||....+.+|++|+.+|+.+++.....-+.
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            36899999999999999999999999999999999876     4    99999999999999999999887765443333


Q ss_pred             E
Q 026648          211 V  211 (235)
Q Consensus       211 ~  211 (235)
                      |
T Consensus       491 W  491 (894)
T KOG0132|consen  491 W  491 (894)
T ss_pred             e
Confidence            3

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

Probab=98.73  E-value=2.9e-08  Score=86.79  Aligned_cols=72  Identities=22%  Similarity=0.328  Sum_probs=61.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHH----hhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAH----IFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~----lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      +.||||.||+..+..++|++    ||++||.|.+|...... +.+|     -|||.|.+.+.|..|+.+|+|+.++..-.
T Consensus         9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~-KmRG-----QA~VvFk~~~~As~A~r~l~gfpFygK~m   82 (221)
T KOG4206|consen    9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTP-KMRG-----QAFVVFKETEAASAALRALQGFPFYGKPM   82 (221)
T ss_pred             CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCC-CccC-----ceEEEecChhHHHHHHHHhcCCcccCchh
Confidence            45999999999999999998    99999999998876554 3343     99999999999999999999998876433


Q ss_pred             ce
Q 026648          208 NL  209 (235)
Q Consensus       208 ~~  209 (235)
                      .+
T Consensus        83 ri   84 (221)
T KOG4206|consen   83 RI   84 (221)
T ss_pred             he
Confidence            33

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

Probab=98.70  E-value=1.3e-08  Score=94.65  Aligned_cols=68  Identities=19%  Similarity=0.357  Sum_probs=62.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +.||||.+.+++.|+.|+..|.+||.|+++.+-+|. +++.+|    ||||||+-+|.|+-|++.|||..+..
T Consensus       114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKg----FAFVEYEvPEaAqLAlEqMNg~mlGG  182 (544)
T KOG0124|consen  114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKG----FAFVEYEVPEAAQLALEQMNGQMLGG  182 (544)
T ss_pred             HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccc----eEEEEEeCcHHHHHHHHHhccccccC
Confidence            789999999999999999999999999999999998 544445    99999999999999999999876654

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

Probab=98.70  E-value=2.9e-08  Score=98.19  Aligned_cols=72  Identities=24%  Similarity=0.291  Sum_probs=62.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++|||.||++++|.++|..+|...|.|+++.|...+.....=-+.|||||+|.++++|+.|+++|||+.|+.
T Consensus       516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldG  587 (725)
T KOG0110|consen  516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDG  587 (725)
T ss_pred             hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecC
Confidence            449999999999999999999999999999998877332121234699999999999999999999999885

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

Probab=98.70  E-value=4.9e-08  Score=85.86  Aligned_cols=73  Identities=37%  Similarity=0.519  Sum_probs=61.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       129 pd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +++-+||||.+||.++..+||..||..|-+++.+.|.... .++..   +.+|||.|.+...|..|+++|||.+++.
T Consensus        31 ~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~---~pvaFatF~s~q~A~aamnaLNGvrFDp  104 (284)
T KOG1457|consen   31 PGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVC---KPVAFATFTSHQFALAAMNALNGVRFDP  104 (284)
T ss_pred             ccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccc---cceEEEEecchHHHHHHHHHhcCeeecc
Confidence            4567999999999999999999999999999888776553 22111   1499999999999999999999999986

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

Probab=98.66  E-value=9.6e-08  Score=90.63  Aligned_cols=69  Identities=20%  Similarity=0.339  Sum_probs=60.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhc-CCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFR-PFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~-~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .+.+||.|+|+++.|.+|++||. +.|+|..|.|..|+.++..|    ||.|||+++|.+++|++.||-+.+..
T Consensus        44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rG----cavVEFk~~E~~qKa~E~lnk~~~~G  113 (608)
T KOG4212|consen   44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARG----CAVVEFKDPENVQKALEKLNKYEVNG  113 (608)
T ss_pred             cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCC----ceEEEeeCHHHHHHHHHHhhhccccC
Confidence            35699999999999999999997 56889999999998543334    99999999999999999999887763

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

Probab=98.64  E-value=5.7e-08  Score=89.41  Aligned_cols=154  Identities=15%  Similarity=0.168  Sum_probs=99.8

Q ss_pred             CCccCCCccccccCCcCCCcccCcccccchhhhhhcCC--CcCCCCCCCCCcccCCCCCCCCCCCCccccCCCCCCCCCC
Q 026648           35 GHELSSYYTRDDDRGALRGMRDTDSLGASYDRYLRSAQ--ISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAK  112 (235)
Q Consensus        35 ~~~~~~y~~~~~~r~~~~~~~~~~~~~~~~~~y~~~~~--~~s~~~g~~~r~~gGg~~G~~~~~r~~~g~gg~~~~~~~~  112 (235)
                      ..+.+.--+||-+ ..|-.|.|..++.+...  .|+.+  |+.|...+..-..- ...-+.++++.+--           
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--GRSRGFGFVTFATPEGVDAVL-NARTHKLDGRSVEP-----------   79 (311)
T ss_pred             CccccHHHHHHHh-cccCceeeEEEeccCCC--CCcccccceecCCCcchheee-cccccccCCccccc-----------
Confidence            3344444455555 67788889999998877  46654  56666443332221 23334445543311           


Q ss_pred             CCcCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHH
Q 026648          113 DRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAAT  192 (235)
Q Consensus       113 ~r~~g~~~~~p~~~~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~  192 (235)
                      .++.....+  ....-.....+|||++||.++++++|++.|.+||.|..+.++.|+..   .++++|+||.|.+++.+.+
T Consensus        80 k~av~r~~~--~~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~---~~~rgFgfv~~~~e~sVdk  154 (311)
T KOG4205|consen   80 KRAVSREDQ--TKVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTT---SRPRGFGFVTFDSEDSVDK  154 (311)
T ss_pred             eeccCcccc--cccccccceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccc---cccccceeeEeccccccce
Confidence            111110000  00000113568999999999999999999999999999999999822   2334499999999999999


Q ss_pred             HHH----HhcCceEeeeeec
Q 026648          193 AMD----ALQGQSNIICLSN  208 (235)
Q Consensus       193 Ai~----~LnG~~i~~~r~~  208 (235)
                      ++.    .|+|+++.++++.
T Consensus       155 v~~~~f~~~~gk~vevkrA~  174 (311)
T KOG4205|consen  155 VTLQKFHDFNGKKVEVKRAI  174 (311)
T ss_pred             ecccceeeecCceeeEeecc
Confidence            885    5788888887764

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

Probab=98.61  E-value=3.2e-08  Score=87.07  Aligned_cols=66  Identities=29%  Similarity=0.577  Sum_probs=57.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..||||.||..+|||++|+.+|+.|.++..++|-..-     |.+  .|||+|++.+.|..|+..|+|..|.-
T Consensus       210 cstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~-----g~~--vaf~~~~~~~~at~am~~lqg~~~s~  275 (284)
T KOG1457|consen  210 CSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARG-----GMP--VAFADFEEIEQATDAMNHLQGNLLSS  275 (284)
T ss_pred             hhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCC-----Ccc--eEeecHHHHHHHHHHHHHhhcceecc
Confidence            4789999999999999999999999999888876542     433  89999999999999999999987764

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

Probab=98.58  E-value=1.4e-07  Score=81.83  Aligned_cols=69  Identities=20%  Similarity=0.322  Sum_probs=59.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCC-CCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~f-G~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..-+||..+|+-+.+.++...|.+| |.+.++||.+.+ ++    .++|||||+|++++-|+.|-+.||+|-+..
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTG----NSKgYAFVEFEs~eVA~IaAETMNNYLl~e  119 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTG----NSKGYAFVEFESEEVAKIAAETMNNYLLME  119 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccC----CcCceEEEEeccHHHHHHHHHHhhhhhhhh
Confidence            3579999999999999999999999 677788887776 54    444599999999999999999999997664

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

Probab=98.57  E-value=1.6e-07  Score=86.74  Aligned_cols=60  Identities=20%  Similarity=0.442  Sum_probs=54.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcC
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQG  199 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG  199 (235)
                      ..+||||++|-..++|.+|++.|-+||+|+++++...+     +    ||||+|.+++.|+.|.+.+-.
T Consensus       227 ~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~-----~----CAFv~ftTR~aAE~Aae~~~n  286 (377)
T KOG0153|consen  227 SIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK-----G----CAFVTFTTREAAEKAAEKSFN  286 (377)
T ss_pred             ceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc-----c----cceeeehhhHHHHHHHHhhcc
Confidence            45899999999999999999999999999999999876     4    999999999999999987533

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

Probab=98.55  E-value=1.9e-07  Score=83.18  Aligned_cols=77  Identities=18%  Similarity=0.174  Sum_probs=66.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      ..+|+|.|||..++++||++||..||.++.+-|-.++.+.    +.|.|=|.|...++|+.|++.+||..++.-...+.+
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 STKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGR----SLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEI  158 (243)
T ss_pred             cceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCC----CCccceeeecchHhHHHHHHHhcCcccCCceeeeEE
Confidence            4789999999999999999999999999999999998543    444999999999999999999999888875554444


Q ss_pred             E
Q 026648          212 F  212 (235)
Q Consensus       212 ~  212 (235)
                      .
T Consensus       159 i  159 (243)
T KOG0533|consen  159 I  159 (243)
T ss_pred             e
Confidence            3

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

Probab=98.53  E-value=1.1e-07  Score=90.71  Aligned_cols=63  Identities=30%  Similarity=0.535  Sum_probs=54.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHh
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL  197 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~L  197 (235)
                      ..+|||+|||+++++++|+++|.+||.|++.+|....   ++++..+||||+|++.++++.||++-
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~---~~~~~~~fgFV~f~~~~~~~~~i~As  350 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRS---PGGKNPCFGFVEFENAAAVQNAIEAS  350 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcccccccceEEec---cCCCcCceEEEEEeecchhhhhhhcC
Confidence            4569999999999999999999999999999988765   22222269999999999999999873

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

Probab=98.50  E-value=1.6e-07  Score=80.28  Aligned_cols=74  Identities=20%  Similarity=0.416  Sum_probs=60.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEE-EEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEV-RLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~v-rl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +.+|||+||.+++.|..|.++|+.||.+.+. +++++. +++++|    |+||.|.+.+.+.+|++.+||+-+  |...+
T Consensus        96 ganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~----~g~i~~~sfeasd~ai~s~ngq~l--~nr~i  169 (203)
T KOG0131|consen   96 GANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKG----FGFINYASFEASDAAIGSMNGQYL--CNRPI  169 (203)
T ss_pred             cccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCC----CeEEechhHHHHHHHHHHhccchh--cCCce
Confidence            3589999999999999999999999998764 667776 444444    999999999999999999999854  34444


Q ss_pred             EE
Q 026648          210 VV  211 (235)
Q Consensus       210 ~~  211 (235)
                      .+
T Consensus       170 tv  171 (203)
T KOG0131|consen  170 TV  171 (203)
T ss_pred             EE
Confidence            44

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

Probab=98.50  E-value=1.1e-07  Score=92.03  Aligned_cols=66  Identities=27%  Similarity=0.405  Sum_probs=58.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +..+|+|-|||..|++++|.++|+.||+|++|+.-..+   + |    .+||+|.+..+|+.|+++|++.+|-.
T Consensus        74 ~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~---~-~----~~~v~FyDvR~A~~Alk~l~~~~~~~  139 (549)
T KOG4660|consen   74 NQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNK---R-G----IVFVEFYDVRDAERALKALNRREIAG  139 (549)
T ss_pred             ccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccccc---C-c----eEEEEEeehHhHHHHHHHHHHHHhhh
Confidence            45799999999999999999999999999997765554   2 4    99999999999999999999887765

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

Probab=98.48  E-value=6e-08  Score=85.05  Aligned_cols=69  Identities=17%  Similarity=0.150  Sum_probs=64.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ...||||+|+-..++||-|.+||-+-|.|.+|.|+.++....+     ||||+|.++-...-|++.+||.++..
T Consensus         8 ~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-----Fa~v~f~~E~sv~~a~~L~ng~~l~~   76 (267)
T KOG4454|consen    8 MDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQK-----FAYVFFPNENSVQLAGQLENGDDLEE   76 (267)
T ss_pred             hhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCc-----eeeeecccccchhhhhhhcccchhcc
Confidence            3579999999999999999999999999999999999866555     99999999999999999999998875

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

Probab=98.45  E-value=1.5e-07  Score=86.62  Aligned_cols=73  Identities=23%  Similarity=0.364  Sum_probs=62.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHH----hcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA----LQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~----LnG~~i~~~r  206 (235)
                      ..++|||++|++++++|.|++.|++||+|.+|.++.++..   |++++|+||+|++.+....++..    |+|..|+.-+
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t---~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~   81 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPST---GRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKR   81 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCC---CCcccccceecCCCcchheeecccccccCCcccccee
Confidence            3689999999999999999999999999999999999822   34555999999999998888864    7777777644

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

Probab=98.37  E-value=8.6e-07  Score=83.39  Aligned_cols=69  Identities=26%  Similarity=0.429  Sum_probs=62.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..+|||.||+..++.+.|+.+|+.||.|.+++|+.+..+..+|    |+||+|.+.++|.+|+..+||..+..
T Consensus       270 ~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv~~~~~g~skG----~gfV~fs~~eeA~~A~~~~n~~~i~~  338 (369)
T KOG0123|consen  270 GANLYVKNLDETLSDEKLRKIFSSFGEITSAKVMVDENGKSKG----FGFVEFSSPEEAKKAMTEMNGRLIGG  338 (369)
T ss_pred             ccccccccCccccchhHHHHHHhcccceeeEEEEeccCCCccc----eEEEEcCCHHHHHHHHHhhChhhhcC
Confidence            5689999999999999999999999999999999998544444    99999999999999999999987764

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

Probab=98.35  E-value=9.2e-07  Score=77.50  Aligned_cols=66  Identities=35%  Similarity=0.660  Sum_probs=61.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++.+||+.|||.+++.+.|..+|.+|.+.++||++..+.    +    .|||+|.+...|..|.++|+|.+|..
T Consensus       145 pn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~----~----iAfve~~~d~~a~~a~~~lq~~~it~  210 (221)
T KOG4206|consen  145 PNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRS----G----IAFVEFLSDRQASAAQQALQGFKITK  210 (221)
T ss_pred             CceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCCC----c----eeEEecchhhhhHHHhhhhccceecc
Confidence            468999999999999999999999999999999998752    4    99999999999999999999999884

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

Probab=98.29  E-value=2.3e-06  Score=85.18  Aligned_cols=80  Identities=20%  Similarity=0.221  Sum_probs=64.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      .++|||+||++.++|+.|-..|..||.|..|+++.-++---+-....|+||-|-++.+|+.|++.|||..|.....-+.|
T Consensus       174 TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gW  253 (877)
T KOG0151|consen  174 TTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGW  253 (877)
T ss_pred             ccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeecc
Confidence            46899999999999999999999999999999987761111112234999999999999999999999877754444433

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

Probab=98.28  E-value=5.7e-07  Score=78.86  Aligned_cols=62  Identities=23%  Similarity=0.435  Sum_probs=57.3

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .+||++||..+.+++|+++|..||.|.+|.+..       |    |+||+|++..+|..|+.-|||..+..-+
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 RVYIGRLPYRARERDVERFFKGYGKIPDADMKN-------G----FGFVEFEDPRDADDAVHDLDGKELCGER   64 (216)
T ss_pred             ceeecccCCccchhHHHHHHhhccccccceeec-------c----cceeccCchhhhhcccchhcCceeccee
Confidence            699999999999999999999999999888765       3    9999999999999999999999888755

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

Probab=98.28  E-value=1.1e-06  Score=82.10  Aligned_cols=68  Identities=15%  Similarity=0.260  Sum_probs=59.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC--CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE--SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk--~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      -+.|||..+..+.+|+||+.+|+-||+|++|.|.+..  .+|+ |    |+|+||.+......||..||=+.+..
T Consensus       210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~Hk-G----yGfiEy~n~qs~~eAiasMNlFDLGG  279 (544)
T KOG0124|consen  210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHK-G----YGFIEYNNLQSQSEAIASMNLFDLGG  279 (544)
T ss_pred             hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCcc-c----eeeEEeccccchHHHhhhcchhhccc
Confidence            4789999999999999999999999999999999998  3333 4    99999999999999999888665543

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

Probab=98.15  E-value=7.3e-06  Score=75.96  Aligned_cols=79  Identities=16%  Similarity=0.201  Sum_probs=66.9

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEE--------EEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKE--------VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       129 pd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~--------vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      +..++.|||.|||.++|-+|+.++|+++|.|.+        |+|-+++.++.+|    =|.+.|--.++.+-|++.|++.
T Consensus       131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKG----DaLc~y~K~ESVeLA~~ilDe~  206 (382)
T KOG1548|consen  131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKG----DALCCYIKRESVELAIKILDED  206 (382)
T ss_pred             cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccC----ceEEEeecccHHHHHHHHhCcc
Confidence            345677999999999999999999999999884        7888888655555    7889999999999999999999


Q ss_pred             eEeeeeeceEE
Q 026648          201 SNIICLSNLVV  211 (235)
Q Consensus       201 ~i~~~r~~~~~  211 (235)
                      .+..|...|-.
T Consensus       207 ~~rg~~~rVer  217 (382)
T KOG1548|consen  207 ELRGKKLRVER  217 (382)
T ss_pred             cccCcEEEEeh
Confidence            88876665543

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

Probab=98.08  E-value=4.6e-06  Score=73.91  Aligned_cols=68  Identities=19%  Similarity=0.297  Sum_probs=61.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ...+||+|+.+.+|-++++..|+.||.|..|.|+.++ .++.+|    |+||+|.+.+.++.|+. |+|..|..
T Consensus       101 ~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~----~~yvef~~~~~~~~ay~-l~gs~i~~  169 (231)
T KOG4209|consen  101 APSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKG----FAYVEFSSYELVEEAYK-LDGSEIPG  169 (231)
T ss_pred             CceEEEeccccccccchhhheeeccCCccceeeeccccCCCcce----eEEEecccHhhhHHHhh-cCCccccc
Confidence            3689999999999999999999999999999999998 444444    99999999999999999 89887774

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

Probab=98.07  E-value=1e-05  Score=79.29  Aligned_cols=70  Identities=21%  Similarity=0.370  Sum_probs=59.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +++|||.+|...+.-.+|+.||++||.|+-.+|++.. +.++  .++|+||.+.+.++|.+||+.|+-++|-.
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNa-RsPG--aRCYGfVTMSts~eAtkCI~hLHrTELHG  474 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNA-RSPG--ARCYGFVTMSTSAEATKCIEHLHRTELHG  474 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceeceeeeecC-CCCC--cceeEEEEecchHHHHHHHHHhhhhhhcc
Confidence            4689999999999999999999999999999999885 2222  24599999999999999999887665543

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

Probab=98.03  E-value=2.4e-05  Score=60.73  Aligned_cols=71  Identities=21%  Similarity=0.267  Sum_probs=59.8

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCC--CCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPF--VGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~f--G~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      +||-|+|+|...|.++|.+++...  |.+.-+.|+.|- ++    -++|||||.|.+++.|.+-.+.++|+++....+
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~----~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s   75 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNK----CNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNS   75 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCC----CceEEEEEEcCCHHHHHHHHHHHcCCccccCCC
Confidence            699999999999999999887643  667778888886 32    345599999999999999999999999986554

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

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

Probab=97.97  E-value=1.5e-05  Score=71.40  Aligned_cols=71  Identities=20%  Similarity=0.376  Sum_probs=62.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      +....||.+-|..+++.+.|...|.+|..+...++++++   |.|+++||+||.|.+.+++..|+..|+|.-+.
T Consensus       188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdk---RTgKSkgygfVSf~~pad~~rAmrem~gkyVg  258 (290)
T KOG0226|consen  188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDK---RTGKSKGYGFVSFRDPADYVRAMREMNGKYVG  258 (290)
T ss_pred             cccceeecccccccccHHHHHHHHHhccchhhccccccc---cccccccceeeeecCHHHHHHHHHhhcccccc
Confidence            345789999999999999999999999999999999998   33455559999999999999999999998654

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

Probab=97.86  E-value=4e-05  Score=60.06  Aligned_cols=59  Identities=24%  Similarity=0.365  Sum_probs=39.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      ..|.|.+++..++.++|+++|++||.|..|.+.....         -|||.|.+.+.|+.|++++.-.
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            4789999999999999999999999999888877542         7899999999999999877654

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

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

Probab=97.78  E-value=1.4e-05  Score=70.12  Aligned_cols=68  Identities=22%  Similarity=0.258  Sum_probs=58.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ..+.|+|.||+..+++.+|++.|.++|.+..+.+.      + +    ++||+|.+.++|.+|++.|+|.++..|...+
T Consensus        98 s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~------~-~----~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~  165 (216)
T KOG0106|consen   98 THFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR------R-N----FAFVEFSEQEDAKRALEKLDGKKLNGRRISV  165 (216)
T ss_pred             ccceeeeccchhhhhHHHHhhhhcccCCCchhhhh------c-c----ccceeehhhhhhhhcchhccchhhcCceeee
Confidence            35789999999999999999999999998554441      2 2    8999999999999999999999999877544

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

Probab=97.66  E-value=0.00016  Score=69.77  Aligned_cols=59  Identities=19%  Similarity=0.394  Sum_probs=49.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHH
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~  196 (235)
                      ..-|-+++||+++|++||.++|+.+ .|..+.+.+..++.+     |=|||||.+++++++|+++
T Consensus        10 ~~~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r~~Gr~s-----GeA~Ve~~seedv~~Alkk   68 (510)
T KOG4211|consen   10 AFEVRLRGLPWSATEKEILDFFSNC-GIENLEIPRRNGRPS-----GEAYVEFTSEEDVEKALKK   68 (510)
T ss_pred             ceEEEecCCCccccHHHHHHHHhcC-ceeEEEEeccCCCcC-----cceEEEeechHHHHHHHHh
Confidence            3567789999999999999999999 688877776653333     3899999999999999974

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

Probab=97.60  E-value=6.3e-05  Score=73.19  Aligned_cols=76  Identities=24%  Similarity=0.399  Sum_probs=65.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      +..+++||++||...++.+++++...||.++..+++.+. .+..+|    |||.+|-++.-...|++.|||..+.....-
T Consensus       287 ~~~~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  287 DSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKG----FAFCEYCDPSVTDQAIAGLNGMQLGDKKLV  362 (500)
T ss_pred             cccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccc----eeeeeeeCCcchhhhhcccchhhhcCceeE
Confidence            345789999999999999999999999999999999987 444455    999999999999999999999988754433


Q ss_pred             e
Q 026648          209 L  209 (235)
Q Consensus       209 ~  209 (235)
                      +
T Consensus       363 v  363 (500)
T KOG0120|consen  363 V  363 (500)
T ss_pred             e
Confidence            3

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

Probab=97.55  E-value=0.00012  Score=69.56  Aligned_cols=68  Identities=24%  Similarity=0.288  Sum_probs=56.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeC---CCCCCCCCC-------ceEEEEEecCHHHHHHHHHHhc
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK---ESRHPGGDP-------LILCFVDFVSPAHAATAMDALQ  198 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~d---k~~~~gG~~-------~~faFVeF~s~~~A~~Ai~~Ln  198 (235)
                      +++||.+.|||.+-.-+.|.+||+.+|.|+.|||..-   ...-++..+       +-||+|+|+..+.|.+|.+.|+
T Consensus       230 ~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~  307 (484)
T KOG1855|consen  230 PSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLN  307 (484)
T ss_pred             ccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhc
Confidence            5799999999999999999999999999999998755   211111122       4589999999999999999985

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

Probab=97.54  E-value=0.00027  Score=67.08  Aligned_cols=72  Identities=14%  Similarity=0.218  Sum_probs=63.7

Q ss_pred             CCeEEEcCCCC-CCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~-~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      +..|.|.||.. .+|.+.|..||+-||.|.+|+|..+|..        -|.|++.+...|+-|++.|+|.++..|...+.
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            57899999965 5899999999999999999999998731        68999999999999999999999999877654


Q ss_pred             E
Q 026648          211 V  211 (235)
Q Consensus       211 ~  211 (235)
                      .
T Consensus       369 ~  369 (492)
T KOG1190|consen  369 L  369 (492)
T ss_pred             e
Confidence            3

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

Probab=97.51  E-value=0.00038  Score=67.17  Aligned_cols=61  Identities=23%  Similarity=0.432  Sum_probs=47.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEE-EEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHH
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~-vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~  196 (235)
                      ...|-+++||+.||++||.++|+..--+.. +-|+.++.++++|    =|||+|++.+.|++|+..
T Consensus       103 d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tG----EAfVqF~sqe~ae~Al~r  164 (510)
T KOG4211|consen  103 DGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTG----EAFVQFESQESAEIALGR  164 (510)
T ss_pred             CceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCccc----ceEEEecCHHHHHHHHHH
Confidence            357999999999999999999997733223 4566665433444    899999999999999864

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

Probab=97.40  E-value=0.00033  Score=48.35  Aligned_cols=52  Identities=17%  Similarity=0.329  Sum_probs=42.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHH
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM  194 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai  194 (235)
                      ++|-|.+.+.+..+.-|+ .|.+||+|.++.+....     -    +.+|.|.++.+|++|+
T Consensus         2 ~wI~V~Gf~~~~~~~vl~-~F~~fGeI~~~~~~~~~-----~----~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAEEVLE-HFASFGEIVDIYVPEST-----N----WMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHHHHHH-HHHhcCCEEEEEcCCCC-----c----EEEEEECCHHHHHhhC
Confidence            578899999888866555 77789999998887332     1    8999999999999985

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

Probab=97.27  E-value=0.00032  Score=68.81  Aligned_cols=78  Identities=19%  Similarity=0.244  Sum_probs=61.6

Q ss_pred             CCeEEEcCCCCCCC------HHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCS------RREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vt------eedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .+.|+|.|+|---.      ..-|..+|+++|.|..+.++.++ ++ .+|    |.|++|.+..+|+.|++.|||++++.
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG----~lf~E~~~~~~A~~aVK~l~G~~ldk  132 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKG----YLFVEYASMRDAKKAVKSLNGKRLDK  132 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eee----EEEEEecChhhHHHHHHhcccceecc
Confidence            46899999996432      23467889999999999999887 43 333    99999999999999999999999997


Q ss_pred             ee-eceEEEEe
Q 026648          205 CL-SNLVVFYQ  214 (235)
Q Consensus       205 ~r-~~~~~~~~  214 (235)
                      .- +-+-+|.|
T Consensus       133 nHtf~v~~f~d  143 (698)
T KOG2314|consen  133 NHTFFVRLFKD  143 (698)
T ss_pred             cceEEeehhhh
Confidence            43 34445555

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

Probab=97.19  E-value=0.0026  Score=64.01  Aligned_cols=68  Identities=24%  Similarity=0.345  Sum_probs=55.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeE-EEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYK-EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~-~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +.|=|.|+|++++-+||-++|..|--+- +|++-....    |.+.|=|-|-|+++++|..|..-|++.+|.-
T Consensus       868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~----G~pTGe~mvAfes~~eAr~A~~dl~~~~i~n  936 (944)
T KOG4307|consen  868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDD----GVPTGECMVAFESQEEARRASMDLDGQKIRN  936 (944)
T ss_pred             eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCC----CCcccceeEeecCHHHHHhhhhccccCcccc
Confidence            3788999999999999999999994433 456555554    4444599999999999999999999999874

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

Probab=97.11  E-value=0.00015  Score=70.60  Aligned_cols=67  Identities=25%  Similarity=0.468  Sum_probs=60.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      .+|+|+--|+...++.+|.++|+.+|.|..|+++.|+ .+..+|    .|||+|.+.+....|| +|.|..+.
T Consensus       179 ~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskg----i~Yvef~D~~sVp~ai-aLsGqrll  246 (549)
T KOG0147|consen  179 QRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKG----IAYVEFCDEQSVPLAI-ALSGQRLL  246 (549)
T ss_pred             HHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcc----eeEEEEecccchhhHh-hhcCCccc
Confidence            4789999999999999999999999999999999998 555555    9999999999999998 78888765

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

Probab=97.09  E-value=0.002  Score=60.11  Aligned_cols=70  Identities=21%  Similarity=0.317  Sum_probs=57.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEE--------EEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKE--------VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~--------vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      +.||||-+||..+++.+|.+.|.+++.|+.        |.|-+++   ..+++++=|.|.|++...|+.||.-+++..+-
T Consensus        66 ~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dk---eT~~~KGeatvS~~D~~~akaai~~~agkdf~  142 (351)
T KOG1995|consen   66 NETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDK---ETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC  142 (351)
T ss_pred             cccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccc---cccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence            468999999999999999999999998874        3444444   22455569999999999999999999988665


Q ss_pred             e
Q 026648          204 I  204 (235)
Q Consensus       204 ~  204 (235)
                      .
T Consensus       143 g  143 (351)
T KOG1995|consen  143 G  143 (351)
T ss_pred             C
Confidence            4

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

Probab=97.04  E-value=0.0012  Score=62.71  Aligned_cols=77  Identities=17%  Similarity=0.155  Sum_probs=62.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      +.||...|+|.+++||+|+.+|..-|...+...--.  +.++     ++.+.+++.|+|..|+-.++.+.+...-.+.+.
T Consensus       414 satlHlsnip~svsee~lk~~f~~~g~~vkafkff~--kd~k-----mal~q~~sveeA~~ali~~hnh~lgen~hlRvS  486 (492)
T KOG1190|consen  414 SATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQ--KDRK-----MALPQLESVEEAIQALIDLHNHYLGENHHLRVS  486 (492)
T ss_pred             hhheeeccCCcccchhHHHHhhhcCCceEEeeeecC--CCcc-----eeecccCChhHhhhhccccccccCCCCceEEEE
Confidence            579999999999999999999999998655443322  2234     999999999999999999999988876566677


Q ss_pred             EEec
Q 026648          212 FYQI  215 (235)
Q Consensus       212 ~~~~  215 (235)
                      |..+
T Consensus       487 FSks  490 (492)
T KOG1190|consen  487 FSKS  490 (492)
T ss_pred             eecc
Confidence            7654

>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=97.02  E-value=0.0024  Score=48.64  Aligned_cols=61  Identities=21%  Similarity=0.289  Sum_probs=41.4

Q ss_pred             CeEEEcCCCCCCCHHH----HHHhhcCCCC-eEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          133 STLFVEGLPSDCSRRE----VAHIFRPFVG-YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       133 ~tLfVgNLP~~vteed----L~~lF~~fG~-I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.|||.|||.+.....    |++|+..+|+ |.+|   ..      +    .|.|.|.+++.|++|.+.|+|-.+...+
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v---~~------~----tAilrF~~~~~A~RA~KRmegEdVfG~k   68 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV---SG------G----TAILRFPNQEFAERAQKRMEGEDVFGNK   68 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-----T------T-----EEEEESSHHHHHHHHHHHTT--SSSS-
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE---eC------C----EEEEEeCCHHHHHHHHHhhcccccccce
Confidence            4699999999998776    5678888976 2222   11      3    8999999999999999999988766533

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

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

Probab=96.96  E-value=0.0021  Score=62.78  Aligned_cols=66  Identities=18%  Similarity=0.255  Sum_probs=51.6

Q ss_pred             HHHhhcCCCCeEEEEEeeC-CCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEEEEecc
Q 026648          149 VAHIFRPFVGYKEVRLVSK-ESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQIA  216 (235)
Q Consensus       149 L~~lF~~fG~I~~vrl~~d-k~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~~~~~~  216 (235)
                      ++.-+.+||.|..|.++.. ....+. --+|..||+|.+.+++++|+++|+|.++. .|--+|.+||.-
T Consensus       426 vr~ec~k~g~v~~v~ipr~~~~~~~~-~G~GkVFVefas~ed~qrA~~~L~GrKF~-nRtVvtsYydeD  492 (500)
T KOG0120|consen  426 VRTECAKFGAVRSVEIPRPYPDENPV-PGTGKVFVEFADTEDSQRAMEELTGRKFA-NRTVVASYYDED  492 (500)
T ss_pred             HHHHhcccCceeEEecCCCCCCCCcC-CCcccEEEEecChHHHHHHHHHccCceeC-CcEEEEEecCHH
Confidence            4555889999999999988 333221 11347899999999999999999999988 466778899854

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

Probab=96.89  E-value=0.0076  Score=52.29  Aligned_cols=63  Identities=17%  Similarity=0.202  Sum_probs=56.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ...+.|.+||..-+++||++...+-|.+.-..+.+|      |    .+.|+|...++.+-|+.+|+..+..-
T Consensus       115 e~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD------g----~GvV~~~r~eDMkYAvr~ld~~~~~s  177 (241)
T KOG0105|consen  115 EYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD------G----VGVVEYLRKEDMKYAVRKLDDQKFRS  177 (241)
T ss_pred             ceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc------c----ceeeeeeehhhHHHHHHhhccccccC
Confidence            367999999999999999999999999888777776      4    88999999999999999999877654

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=96.84  E-value=0.00083  Score=61.32  Aligned_cols=68  Identities=28%  Similarity=0.331  Sum_probs=56.8

Q ss_pred             CCeEE-EcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          132 SSTLF-VEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       132 ~~tLf-VgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      ..++| |++|++++++++|+..|..+|.|..++++.++   ..|...||+||+|.+...+..|+.. +...+.
T Consensus       184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~---~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~  252 (285)
T KOG4210|consen  184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDE---ESGDSKGFAYVDFSAGNSKKLALND-QTRSIG  252 (285)
T ss_pred             cccceeecccccccchHHHhhhccCcCcceeeccCCCC---CccchhhhhhhhhhhchhHHHHhhc-ccCccc
Confidence            34555 99999999999999999999999999999988   2245555999999999999999876 555444

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

Probab=96.82  E-value=0.0049  Score=59.94  Aligned_cols=65  Identities=23%  Similarity=0.323  Sum_probs=47.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCce---EEEEEecCHHHHHHHHHH
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLI---LCFVDFVSPAHAATAMDA  196 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~---faFVeF~s~~~A~~Ai~~  196 (235)
                      -+++||||+||.+++|++|...|..||.+ .|..+.+......=-++|   |+|..|+++...+.=+.+
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            35899999999999999999999999985 345443221111112445   999999999888775544

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

Probab=96.76  E-value=0.0036  Score=60.84  Aligned_cols=65  Identities=31%  Similarity=0.410  Sum_probs=56.7

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHhhc-CCCCeEEEEEeeC-CCCCCCCCCceEEEEEecCHHHHHHHHHH
Q 026648          128 PPDASSTLFVEGLPSDCSRREVAHIFR-PFVGYKEVRLVSK-ESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (235)
Q Consensus       128 ppd~~~tLfVgNLP~~vteedL~~lF~-~fG~I~~vrl~~d-k~~~~gG~~~~faFVeF~s~~~A~~Ai~~  196 (235)
                      +-|+.+|||||+||.-++-+||..+|. -||.|.-|-|=.| +=|-++|    =|=|.|.+...=.+||++
T Consensus       366 ~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkG----aGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  366 PIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKG----AGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             ccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCC----cceeeecccHHHHHHHhh
Confidence            446789999999999999999999999 8999999999888 4444555    889999999999999975

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

Probab=96.75  E-value=0.0091  Score=45.38  Aligned_cols=55  Identities=18%  Similarity=0.409  Sum_probs=44.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhc
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln  198 (235)
                      ....+|+ +|.+-...||.+||++||.| .|..+.+.          -|||...+++.|..|+..+.
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            4567777 99999999999999999986 67777775          89999999999999998886

; 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.

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

Probab=96.67  E-value=0.056  Score=51.31  Aligned_cols=75  Identities=16%  Similarity=0.197  Sum_probs=63.9

Q ss_pred             CCeEEEcCCCCC-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~-vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      ++.+.|-+|... ++-+.|-.||-.||.|++|++++.+.    |    -|.||..+..+.++|+..||+..+-..+.++|
T Consensus       287 g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~----g----tamVemgd~~aver~v~hLnn~~lfG~kl~v~  358 (494)
T KOG1456|consen  287 GCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP----G----TAMVEMGDAYAVERAVTHLNNIPLFGGKLNVC  358 (494)
T ss_pred             CcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc----c----eeEEEcCcHHHHHHHHHHhccCccccceEEEe
Confidence            678999999875 45667889999999999999998873    3    89999999999999999999988877667777


Q ss_pred             EEEe
Q 026648          211 VFYQ  214 (235)
Q Consensus       211 ~~~~  214 (235)
                      +--|
T Consensus       359 ~SkQ  362 (494)
T KOG1456|consen  359 VSKQ  362 (494)
T ss_pred             eccc
Confidence            6544

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

Probab=96.67  E-value=0.01  Score=56.31  Aligned_cols=60  Identities=28%  Similarity=0.421  Sum_probs=46.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCC----CCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHH
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPF----VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~f----G~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~  196 (235)
                      -.|-.++||+++++.|+.++|.+-    +..+.|-++...+++..|    =|||.|..+++|+.|+.+
T Consensus       162 vivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTG----dAFvlfa~ee~aq~aL~k  225 (508)
T KOG1365|consen  162 VIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTG----DAFVLFACEEDAQFALRK  225 (508)
T ss_pred             eEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCccc----ceEEEecCHHHHHHHHHH
Confidence            356678999999999999999743    345566667665544444    899999999999999864

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

Probab=96.62  E-value=0.0063  Score=57.53  Aligned_cols=58  Identities=17%  Similarity=0.294  Sum_probs=51.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHH
Q 026648          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMD  195 (235)
Q Consensus       129 pd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~  195 (235)
                      +.++-.+.|++|-..++|.||-+..+.||.|..|.++..+.         .+.|+|++.+.|+.++.
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            33466899999999999999999999999999998877652         78999999999999875

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

Probab=96.57  E-value=0.00085  Score=68.36  Aligned_cols=69  Identities=17%  Similarity=0.254  Sum_probs=59.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ...|||.|+|+..|.++|+.+|+.+|.+++++++..+.+.++|    .+||.|.++.+|.+++...+...+.-
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg----~a~v~y~~ea~~s~~~~s~d~~~~rE  804 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKG----KARVDYNTEADASRKVASVDVAGKRE  804 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhcccccc----ceeccCCCcchhhhhcccchhhhhhh
Confidence            4579999999999999999999999999999999888644444    99999999999999987766554443

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

Probab=96.56  E-value=0.0029  Score=59.95  Aligned_cols=79  Identities=15%  Similarity=0.213  Sum_probs=59.5

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEEEE
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFY  213 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~~~  213 (235)
                      .|-|.||.+.+|.++++.||...|.|.+++|....+....--..-.|||.|.+...+..| +.|.++.+- -+.++|+.|
T Consensus         9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~va-QhLtntvfv-draliv~p~   86 (479)
T KOG4676|consen    9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVA-QHLTNTVFV-DRALIVRPY   86 (479)
T ss_pred             eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHH-hhhccceee-eeeEEEEec
Confidence            699999999999999999999999999999987542111111122799999999999888 455665443 255667666


Q ss_pred             e
Q 026648          214 Q  214 (235)
Q Consensus       214 ~  214 (235)
                      -
T Consensus        87 ~   87 (479)
T KOG4676|consen   87 G   87 (479)
T ss_pred             C
Confidence            4

>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=96.53  E-value=0.007  Score=47.21  Aligned_cols=78  Identities=19%  Similarity=0.141  Sum_probs=50.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeC--------CCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK--------ESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~d--------k~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      .+.|.|=+.|.. ....|-+.|++||.|++..-..+        ..-..+.    +-.|.|+++.+|++||+. ||..+.
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~N----Wi~I~Y~~~~~A~rAL~~-NG~i~~   79 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGN----WIHITYDNPLSAQRALQK-NGTIFS   79 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTT----EEEEEESSHHHHHHHHTT-TTEEET
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCC----EEEEECCCHHHHHHHHHh-CCeEEc
Confidence            467888889988 55567788999999988751111        1000112    999999999999999976 898887


Q ss_pred             eeeeceEEEEec
Q 026648          204 ICLSNLVVFYQI  215 (235)
Q Consensus       204 ~~r~~~~~~~~~  215 (235)
                      ......|...+.
T Consensus        80 g~~mvGV~~~~~   91 (100)
T PF05172_consen   80 GSLMVGVKPCDP   91 (100)
T ss_dssp             TCEEEEEEE-HH
T ss_pred             CcEEEEEEEcHH
Confidence            655554555543

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.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.34  E-value=0.0069  Score=56.63  Aligned_cols=71  Identities=15%  Similarity=0.282  Sum_probs=53.9

Q ss_pred             CCeEEEcCCCCCCCHHH----H--HHhhcCCCCeEEEEEeeCC-CCCCCCCCceE-EEEEecCHHHHHHHHHHhcCceEe
Q 026648          132 SSTLFVEGLPSDCSRRE----V--AHIFRPFVGYKEVRLVSKE-SRHPGGDPLIL-CFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       132 ~~tLfVgNLP~~vteed----L--~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~f-aFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      .+-+||-+||..+..|+    |  .+.|.+||.|++|.|-++. .-...- . .+ .||.|.+.++|++||...+|..++
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~-~-h~gvYITy~~kedAarcIa~vDgs~~D  191 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTA-S-HAGVYITYSTKEDAARCIAEVDGSLLD  191 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhccceeEEEeccccccccccc-c-cceEEEEecchHHHHHHHHHhcccccc
Confidence            46799999999988887    3  3789999999998776554 111110 0 12 499999999999999999988777


Q ss_pred             e
Q 026648          204 I  204 (235)
Q Consensus       204 ~  204 (235)
                      .
T Consensus       192 G  192 (480)
T COG5175         192 G  192 (480)
T ss_pred             C
Confidence            5

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

Probab=96.00  E-value=0.006  Score=54.94  Aligned_cols=73  Identities=18%  Similarity=0.187  Sum_probs=58.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHh--cCceEeeeeece
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL--QGQSNIICLSNL  209 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~L--nG~~i~~~r~~~  209 (235)
                      ..|||.||+..++.+.|.+-|+.||.|....++.|..+...+    =++|+|...-.|.+|+..+  .|+-+..|...+
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~----eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~  106 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTR----EGIVEFAKKPNARKAARRCREGGFGGTTGGRPV  106 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccc----cchhhhhcchhHHHHHHHhccCccccCCCCCcc
Confidence            579999999999999999999999999987777776332323    6799999999999999887  555555555444

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

Probab=95.77  E-value=0.055  Score=50.70  Aligned_cols=81  Identities=14%  Similarity=0.258  Sum_probs=62.0

Q ss_pred             CCCeEEEcCC----CCCCC-------HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcC
Q 026648          131 ASSTLFVEGL----PSDCS-------RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQG  199 (235)
Q Consensus       131 ~~~tLfVgNL----P~~vt-------eedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG  199 (235)
                      ..+||.++|+    -++.+       +++|.+-.++||.|.+|.|--.   ++.|    .+-|.|.+.++|..||+.|+|
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            4589999998    23444       4456666999999999876533   3446    999999999999999999999


Q ss_pred             ceEeeeeeceEEEEeccccc
Q 026648          200 QSNIICLSNLVVFYQIACEY  219 (235)
Q Consensus       200 ~~i~~~r~~~~~~~~~~~~~  219 (235)
                      .-++ .|-+....+|....+
T Consensus       337 R~fd-gRql~A~i~DG~t~~  355 (382)
T KOG1548|consen  337 RWFD-GRQLTASIWDGKTKF  355 (382)
T ss_pred             eeec-ceEEEEEEeCCccee
Confidence            8776 466777788865443

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

Probab=95.72  E-value=0.0074  Score=59.79  Aligned_cols=76  Identities=17%  Similarity=0.254  Sum_probs=60.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCe-EEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee-e
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGY-KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL-S  207 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I-~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r-~  207 (235)
                      ..++.|+|.||-.-.|.-+|+.|+.+-|++ .+.  -.|+=+.       -|||.|.+.++|...+.+|+|.++-... .
T Consensus       442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmDkIKS-------hCyV~yss~eEA~atr~AlhnV~WP~sNPK  512 (718)
T KOG2416|consen  442 EPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMDKIKS-------HCYVSYSSVEEAAATREALHNVQWPPSNPK  512 (718)
T ss_pred             CccceEeeecccccchHHHHHHHHhhccCchHHH--HHHHhhc-------ceeEecccHHHHHHHHHHHhccccCCCCCc
Confidence            367899999999999999999999965554 343  2333111       6999999999999999999999988866 4


Q ss_pred             ceEEEEe
Q 026648          208 NLVVFYQ  214 (235)
Q Consensus       208 ~~~~~~~  214 (235)
                      .||..|+
T Consensus       513 ~L~adf~  519 (718)
T KOG2416|consen  513 HLIADFV  519 (718)
T ss_pred             eeEeeec
Confidence            6677776

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

Probab=95.54  E-value=0.047  Score=39.12  Aligned_cols=54  Identities=22%  Similarity=0.387  Sum_probs=45.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCC---CCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHh
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPF---VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL  197 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~f---G~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~L  197 (235)
                      .+|+|+++. +.+.++|+..|..|   ....+|..+.|.          -|=|.|.+.+.|.+|+.+|
T Consensus         6 eavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt----------ScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT----------SCNVVFKDEETAARALVAL   62 (62)
T ss_pred             ceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC----------cEEEEECCHHHHHHHHHcC
Confidence            589999985 58888999999988   234588888886          5789999999999999875

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

Probab=95.31  E-value=0.0034  Score=64.50  Aligned_cols=69  Identities=20%  Similarity=0.212  Sum_probs=59.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++.|||++||+..+++.+|+..|..+|.|.+|.|-..+ +.-..     |+||.|.+...+-.|...+.+..|.-
T Consensus       371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa-----~~f~~~~n~dmtp~ak~e~s~~~I~~  440 (975)
T KOG0112|consen  371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESA-----YAFVSLLNTDMTPSAKFEESGPLIGN  440 (975)
T ss_pred             hhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccc-----hhhhhhhccccCcccchhhcCCcccc
Confidence            56899999999999999999999999999999987775 22222     99999999999999999988876654

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

Probab=95.00  E-value=0.015  Score=52.34  Aligned_cols=72  Identities=18%  Similarity=0.298  Sum_probs=58.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-C----CCC-CCC-CceE--EEEEecCHHHHHHHHHHhcCceEe
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-S----RHP-GGD-PLIL--CFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~----~~~-gG~-~~~f--aFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      ..||+++||+.+...-|++||++||.|-+|.|.+.. .    +.+ +|. ..-|  |.|||.+...|....+.|||..|.
T Consensus        75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Ig  154 (278)
T KOG3152|consen   75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIG  154 (278)
T ss_pred             eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccC
Confidence            579999999999999999999999999999998765 2    111 111 1123  579999999999999999999988


Q ss_pred             e
Q 026648          204 I  204 (235)
Q Consensus       204 ~  204 (235)
                      .
T Consensus       155 g  155 (278)
T KOG3152|consen  155 G  155 (278)
T ss_pred             C
Confidence            6

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

Probab=94.66  E-value=0.032  Score=53.61  Aligned_cols=60  Identities=20%  Similarity=0.357  Sum_probs=45.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCce
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQS  201 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~  201 (235)
                      ++||++||...++..+|+.+|...---.+-.++.+.     |    |+||...+...|.+|++.|+|+.
T Consensus         2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k~-----g----yafvd~pdq~wa~kaie~~sgk~   61 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKS-----G----YAFVDCPDQQWANKAIETLSGKV   61 (584)
T ss_pred             CcccccccCCCCChHHHHHHhccccCCCCcceeeec-----c----eeeccCCchhhhhhhHHhhchhh
Confidence            479999999999999999999854110011111111     4    99999999999999999988764

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

Probab=94.64  E-value=0.074  Score=50.63  Aligned_cols=67  Identities=16%  Similarity=0.334  Sum_probs=54.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCC-eE--EEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVG-YK--EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSN  202 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~-I~--~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i  202 (235)
                      ...|-+++||++.+.|+|-++|..|-. |.  -|.++.+..+++.|    =|||+|.+.+.|..|....+.+..
T Consensus       280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSG----eAFIqm~nae~a~aaaqk~hk~~m  349 (508)
T KOG1365|consen  280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSG----EAFIQMRNAERARAAAQKCHKKLM  349 (508)
T ss_pred             CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcCh----hhhhhhhhhHHHHHHHHHHHHhhc
Confidence            467999999999999999999998854 22  27777776544444    899999999999999988776655

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

Probab=94.40  E-value=0.54  Score=37.21  Aligned_cols=73  Identities=10%  Similarity=0.139  Sum_probs=54.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG-~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      ..+.+-..|.-++-++|..+.+++- .|..+||+++...++     ..+.+.|.+.+.|..-.+.+||+.+.-....+|
T Consensus        14 ~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnr-----ymVLikF~~~~~Ad~Fy~~fNGk~FnslEpE~C   87 (110)
T PF07576_consen   14 TLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNR-----YMVLIKFRDQESADEFYEEFNGKPFNSLEPETC   87 (110)
T ss_pred             eEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCce-----EEEEEEECCHHHHHHHHHHhCCCccCCCCCcee
Confidence            3455566666677777877777664 466789998864333     378999999999999999999999877666554

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

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

Probab=94.37  E-value=0.0042  Score=63.46  Aligned_cols=64  Identities=22%  Similarity=0.324  Sum_probs=53.5

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      .++||.||+..+.+++|...|.++|.+..+++.--+ .    ++.+|.|||+|..+++|.+|+.-..+.
T Consensus       668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~----~~~rG~~Y~~F~~~~~~~aaV~f~d~~  732 (881)
T KOG0128|consen  668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNE----KRFRGKAYVEFLKPEHAGAAVAFRDSC  732 (881)
T ss_pred             HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhc----cccccceeeEeecCCchhhhhhhhhhh
Confidence            679999999999999999999999999988877332 2    344459999999999999999866544

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

Probab=93.29  E-value=0.14  Score=43.55  Aligned_cols=72  Identities=13%  Similarity=0.184  Sum_probs=46.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcC-CCCe---EEEEEeeCCCCCCCCCCc-eEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRP-FVGY---KEVRLVSKESRHPGGDPL-ILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~-fG~I---~~vrl~~dk~~~~gG~~~-~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ...+|.|++||+..||+++.+.+++ ++.-   ..+.-.....  .-..+. --|||.|.+.+++..-.+.++|+.+..
T Consensus         6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~--~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D   82 (176)
T PF03467_consen    6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKK--SFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVD   82 (176)
T ss_dssp             ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-S--SSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-
T ss_pred             cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCc--cCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEEC
Confidence            3579999999999999999998887 6665   3333112220  111111 258999999999999999999987654

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

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

Probab=92.95  E-value=0.11  Score=53.82  Aligned_cols=64  Identities=17%  Similarity=0.240  Sum_probs=56.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++.++|++|+.-+....|...|..||.|..|.+-..       ++  |++|.|++...|+.|+..|-|..+..
T Consensus       455 ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg-------q~--yayi~yes~~~aq~a~~~~rgap~G~  518 (975)
T KOG0112|consen  455 TTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG-------QP--YAYIQYESPPAAQAATHDMRGAPLGG  518 (975)
T ss_pred             ceeeccCCCCCCChHHHHHHHhhccCcceeeecccC-------Cc--ceeeecccCccchhhHHHHhcCcCCC
Confidence            578999999999999999999999999988665433       22  99999999999999999999998877

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

Probab=92.83  E-value=0.1  Score=52.88  Aligned_cols=67  Identities=22%  Similarity=0.304  Sum_probs=52.6

Q ss_pred             CCCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEE-EEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHH
Q 026648          126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (235)
Q Consensus       126 ~~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~-vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~  196 (235)
                      +.|-.+...|||..||..+++.++-..|..--.|++ |.|....+....+    -|||+|..++++.+|...
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 PFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRP----AAFVAFIHPTAPLTASSV  495 (944)
T ss_pred             CCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccc----hhhheeccccccchhhhc
Confidence            355567889999999999999999999998877776 6666555333333    899999999888888643

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

Probab=91.86  E-value=0.11  Score=49.12  Aligned_cols=75  Identities=12%  Similarity=0.129  Sum_probs=55.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCC--CeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFV--GYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG--~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      .-.+||+||-+.+|++||-+....-|  .|.++++...+ +    |+++|||.|...+....++-++.|--..|.. ...
T Consensus        80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~N----GQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHG-Q~P  154 (498)
T KOG4849|consen   80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTN----GQSKGYALLVLNSDAAVKQTMEILPTKTIHG-QSP  154 (498)
T ss_pred             eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccC----CcccceEEEEecchHHHHHHHHhcccceecC-CCC
Confidence            35699999999999999988877654  35556666555 4    4555599999999999999999887666553 444


Q ss_pred             eEE
Q 026648          209 LVV  211 (235)
Q Consensus       209 ~~~  211 (235)
                      +++
T Consensus       155 ~V~  157 (498)
T KOG4849|consen  155 TVL  157 (498)
T ss_pred             eee
Confidence            443

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

Probab=91.65  E-value=0.057  Score=48.62  Aligned_cols=65  Identities=17%  Similarity=0.175  Sum_probs=44.7

Q ss_pred             HHHHhhc-CCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee--eceEEEEecc
Q 026648          148 EVAHIFR-PFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL--SNLVVFYQIA  216 (235)
Q Consensus       148 dL~~lF~-~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r--~~~~~~~~~~  216 (235)
                      +|..-|+ +||+|+++.|-..-.-+-.|    =++|.|...++|++|++.|||--+..-.  .++|-++++.
T Consensus        84 d~f~E~~~kygEiee~~Vc~Nl~~hl~G----NVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~r  151 (260)
T KOG2202|consen   84 DVFTELEDKYGEIEELNVCDNLGDHLVG----NVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFR  151 (260)
T ss_pred             HHHHHHHHHhhhhhhhhhhcccchhhhh----hhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchh
Confidence            3333344 89999998665554434334    7899999999999999999987666522  2445555543

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

Probab=91.22  E-value=0.13  Score=53.17  Aligned_cols=67  Identities=18%  Similarity=0.193  Sum_probs=58.4

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +.++.|.+-..+..-|..||+.||.+.+.+..++-.         .|.|+|.+.+.|..|+++|+|.++-+.....
T Consensus       300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~N---------~alvs~~s~~sai~a~dAl~gkevs~~g~Ps  366 (1007)
T KOG4574|consen  300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDLN---------MALVSFSSVESAILALDALQGKEVSVTGAPS  366 (1007)
T ss_pred             hhhhhcccccchHHHHHHHHHhhcchhhheeccccc---------chhhhhHHHHHHHHhhhhhcCCcccccCCce
Confidence            456667788889999999999999999999887752         8999999999999999999999998876544

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=90.63  E-value=0.16  Score=47.28  Aligned_cols=71  Identities=18%  Similarity=0.320  Sum_probs=54.2

Q ss_pred             CCeEEEcCCCCCCCHHHH-H--HhhcCCCCeEEEEEeeCCC--CCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREV-A--HIFRPFVGYKEVRLVSKES--RHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL-~--~lF~~fG~I~~vrl~~dk~--~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .+-+||-+|+.....+++ +  +.|.+||.|.+|.+-.+..  ...++  ..-++|.|+..++|..||...+|+.++.
T Consensus        77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~--~~s~yITy~~~eda~rci~~v~g~~~dg  152 (327)
T KOG2068|consen   77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGG--TCSVYITYEEEEDADRCIDDVDGFVDDG  152 (327)
T ss_pred             hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCC--CCcccccccchHhhhhHHHHhhhHHhhh
Confidence            357899999988766654 3  6799999999998887662  22222  1126999999999999999999987775

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

Probab=90.25  E-value=0.78  Score=45.67  Aligned_cols=63  Identities=16%  Similarity=0.273  Sum_probs=52.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcC--CCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHh-------cCce
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRP--FVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL-------QGQS  201 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~--fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~L-------nG~~  201 (235)
                      ..+.+.++-||..+-.|+++-||+.  +..+.+|.+....          ==||.|++..+|+.|.+.|       +|+.
T Consensus       174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~----------nWyITfesd~DAQqAykylreevk~fqgKp  243 (684)
T KOG2591|consen  174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND----------NWYITFESDTDAQQAYKYLREEVKTFQGKP  243 (684)
T ss_pred             ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC----------ceEEEeecchhHHHHHHHHHHHHHhhcCcc
Confidence            3567888999999999999999985  6788888887765          2599999999999998754       5765


Q ss_pred             Ee
Q 026648          202 NI  203 (235)
Q Consensus       202 i~  203 (235)
                      |.
T Consensus       244 Im  245 (684)
T KOG2591|consen  244 IM  245 (684)
T ss_pred             hh
Confidence            54

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

Probab=89.22  E-value=0.61  Score=47.02  Aligned_cols=60  Identities=15%  Similarity=0.036  Sum_probs=51.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      ..++||+|+...+.++-++.+...+|-|.+++.+  +          |+|.+|..+..+..|+..|+-..++
T Consensus        40 ~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~--~----------fgf~~f~~~~~~~ra~r~~t~~~~~   99 (668)
T KOG2253|consen   40 RDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD--K----------FGFCEFLKHIGDLRASRLLTELNID   99 (668)
T ss_pred             CceeEecchhhhhhHHHHHHHHhhCCcchhhhhh--h----------hcccchhhHHHHHHHHHHhcccCCC
Confidence            5799999999999999999999999987665432  2          8999999999999999988765554

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

Probab=88.83  E-value=1.4  Score=36.79  Aligned_cols=63  Identities=25%  Similarity=0.294  Sum_probs=43.9

Q ss_pred             CCCCCCeEEEcCCC-----CCCCHH----HHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhc
Q 026648          128 PPDASSTLFVEGLP-----SDCSRR----EVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (235)
Q Consensus       128 ppd~~~tLfVgNLP-----~~vtee----dL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln  198 (235)
                      |||  .||.|.=+.     ...-.+    +|-+.|.+||.+.=||++-+           .-.|.|.+-+.|.+|++ |+
T Consensus        25 PpD--aTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~-----------~mwVTF~dg~sALaals-~d   90 (146)
T PF08952_consen   25 PPD--ATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD-----------TMWVTFRDGQSALAALS-LD   90 (146)
T ss_dssp             -TT---EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT-----------CEEEEESSCHHHHHHHH-GC
T ss_pred             CCC--ceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC-----------eEEEEECccHHHHHHHc-cC
Confidence            444  477776555     122233    67788999999888888865           46899999999999985 58


Q ss_pred             CceEee
Q 026648          199 GQSNII  204 (235)
Q Consensus       199 G~~i~~  204 (235)
                      |.+|..
T Consensus        91 g~~v~g   96 (146)
T PF08952_consen   91 GIQVNG   96 (146)
T ss_dssp             CSEETT
T ss_pred             CcEECC
Confidence            888765

; PDB: 1UFW_A 2DNR_A.

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

Probab=88.26  E-value=1.3  Score=41.06  Aligned_cols=66  Identities=21%  Similarity=0.202  Sum_probs=47.0

Q ss_pred             HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEEEEe
Q 026648          146 RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQ  214 (235)
Q Consensus       146 eedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~~~~  214 (235)
                      ++++++-+++||.|..|-|-...+. + -+-..=-||+|+..++|.+|+--|||.-+.. |.--.+||+
T Consensus       300 ede~keEceKyg~V~~viifeip~~-p-~deavRiFveF~r~e~aiKA~VdlnGRyFGG-r~v~A~Fyn  365 (378)
T KOG1996|consen  300 EDETKEECEKYGKVGNVIIFEIPSQ-P-EDEAVRIFVEFERVESAIKAVVDLNGRYFGG-RVVSACFYN  365 (378)
T ss_pred             HHHHHHHHHhhcceeeEEEEecCCC-c-cchhheeeeeeccHHHHHHHHHhcCCceecc-eeeeheecc
Confidence            3467788999999999877665511 0 0111246999999999999999999986664 544455665

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

Probab=87.63  E-value=0.74  Score=45.51  Aligned_cols=69  Identities=14%  Similarity=0.236  Sum_probs=50.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhc----------------------------CCCCeEEEEEeeCC-CCCCCCCCceEEEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFR----------------------------PFVGYKEVRLVSKE-SRHPGGDPLILCFV  182 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~----------------------------~fG~I~~vrl~~dk-~~~~gG~~~~faFV  182 (235)
                      .+++-|+|+|..-++.+|..+..                            ..|...-+.|+.|- .+.-    +|||||
T Consensus       361 Rtt~~i~ni~n~~~~~dl~~Ildge~~rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcN----vGYAFI  436 (549)
T KOG4660|consen  361 RTTVMIKNIPNKYGQLDLLRILDGECPRTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCN----VGYAFI  436 (549)
T ss_pred             hhhhhhhccccchhHHHHHHHHhCcCchhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccc----cceeEE
Confidence            45677777776666666655532                            35666667788776 3333    349999


Q ss_pred             EecCHHHHHHHHHHhcCceEee
Q 026648          183 DFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       183 eF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      -|.+++.+..+.+++||++.+.
T Consensus       437 Nm~sp~ai~~F~kAFnGk~W~~  458 (549)
T KOG4660|consen  437 NMTSPEAIIRFYKAFNGKKWEK  458 (549)
T ss_pred             eecCHHHHHHHHHHHcCCchhh
Confidence            9999999999999999998775

>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=87.18  E-value=4  Score=29.47  Aligned_cols=53  Identities=13%  Similarity=0.192  Sum_probs=42.4

Q ss_pred             CCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          143 DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       143 ~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      .++-++++..+..|.-   .+|..+++    |     =||.|.+.++|+++.+..+|..+-.++.
T Consensus        11 ~~~v~d~K~~Lr~y~~---~~I~~d~t----G-----fYIvF~~~~Ea~rC~~~~~~~~~f~y~m   63 (66)
T PF11767_consen   11 GVTVEDFKKRLRKYRW---DRIRDDRT----G-----FYIVFNDSKEAERCFRAEDGTLFFTYRM   63 (66)
T ss_pred             CccHHHHHHHHhcCCc---ceEEecCC----E-----EEEEECChHHHHHHHHhcCCCEEEEEEE
Confidence            5678899999999953   34456653    3     3899999999999999999999887663

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

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

Probab=86.32  E-value=1.9  Score=41.93  Aligned_cols=74  Identities=15%  Similarity=0.273  Sum_probs=61.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCC-CCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~f-G~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      ++.|+|=-+|..+|-.||-.+...| -.|..+++++|....+     -...|.|.+.++|..-.+.+||..+.-....+|
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnr-----ymvLIkFr~q~da~~Fy~efNGk~Fn~le~e~C  148 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNR-----YMVLIKFRDQADADTFYEEFNGKQFNSLEPEVC  148 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCce-----EEEEEEeccchhHHHHHHHcCCCcCCCCCccce
Confidence            6899999999999999999887765 5688899999764333     268999999999999999999998876555443

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=84.89  E-value=1.5  Score=36.74  Aligned_cols=59  Identities=22%  Similarity=0.274  Sum_probs=46.0

Q ss_pred             CCeEEEcCCCCCCC-HHHHH---HhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          132 SSTLFVEGLPSDCS-RREVA---HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       132 ~~tLfVgNLP~~vt-eedL~---~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      -.||.|+=|..++. .+||+   .-.+.||.|++|.+--..          -|.|.|.+...|=.|+.+++..
T Consensus        86 MsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGrq----------savVvF~d~~SAC~Av~Af~s~  148 (166)
T PF15023_consen   86 MSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGRQ----------SAVVVFKDITSACKAVSAFQSR  148 (166)
T ss_pred             ceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCCc----------eEEEEehhhHHHHHHHHhhcCC
Confidence            36899988777664 34444   557789999998865433          7999999999999999999863

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=82.34  E-value=1.2  Score=40.82  Aligned_cols=70  Identities=21%  Similarity=0.093  Sum_probs=56.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..+++||+++...+.+.+...++...|....+.+...+ ....+|    ++.|.|...+++..|+.....+.++.
T Consensus        87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~----~~s~~f~~ks~~~~~l~~s~~~~~~~  157 (285)
T KOG4210|consen   87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKG----GLSVHFAGKSQFFAALEESGSKVLDG  157 (285)
T ss_pred             ccccccccccccchhhccccccchhhcCcccchhhhhcccccccc----ceeeccccHHHHHHHHHhhhcccccc
Confidence            46799999999999999999999999988887776654 222234    99999999999999998766544444

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

Probab=82.05  E-value=3.1  Score=38.67  Aligned_cols=64  Identities=16%  Similarity=0.100  Sum_probs=47.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      ..|=|=++|..... -|..+|++||+|++....  .++   .    |-+|.|.++.+|.+||.. ||+.|+.-.+
T Consensus       198 ~WVTVfGFppg~~s-~vL~~F~~cG~Vvkhv~~--~ng---N----wMhirYssr~~A~KALsk-ng~ii~g~vm  261 (350)
T KOG4285|consen  198 TWVTVFGFPPGQVS-IVLNLFSRCGEVVKHVTP--SNG---N----WMHIRYSSRTHAQKALSK-NGTIIDGDVM  261 (350)
T ss_pred             ceEEEeccCccchh-HHHHHHHhhCeeeeeecC--CCC---c----eEEEEecchhHHHHhhhh-cCeeeccceE
Confidence            44555566665544 356789999999876555  222   2    999999999999999987 8888886443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	235
3pgw_A	282	Crystal Structure Of Human U1 Snrnp Length = 282		4e-05
2u1a_A	88	Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20		6e-05
2b0g_A	83	Solution Structure Of Drosophila Melanogaster Snf R		6e-05
2do4_A	100	Solution Structure Of The Rna Binding Domain Of Squ		1e-04

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 44/84 (52%), Gaps = 14/84 (16%)
Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           PP+    LF+  LP + +   ++ +F  F G+KEVRLV    RH       + FV+F + 
Sbjct: 205 PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLVP--GRHD------IAFVEFDNE 254
Query: 188 AHAATAMDALQG----QSNIICLS 207
             A  A DALQG    Q+N + +S
Sbjct: 255 VQAGAARDALQGFKITQNNAMKIS 278

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 44/84 (52%), Gaps = 14/84 (16%)
Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           PP+    LF+  LP + +   ++ +F  F G+KEVRLV    RH       + FV+F + 
Sbjct: 11  PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLVP--GRHD------IAFVEFDNE 60
Query: 188 AHAATAMDALQG----QSNIICLS 207
             A  A DALQG    Q+N + +S
Sbjct: 61  VQAGAARDALQGFKITQNNAMKIS 84

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 39/72 (54%), Gaps = 10/72 (13%)
Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           PP+    LF+  LP + +   ++ +F  F G+KEVRLV   +RH       + FV+F + 
Sbjct: 6   PPN--QILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVP--NRHD------IAFVEFTTE 55
Query: 188 AHAATAMDALQG 199
             +  A +ALQG
Sbjct: 56  LQSNAAKEALQG 67

>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 = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 40/73 (54%), Gaps = 7/73 (9%)
Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA- 193
           LF+ GLP  C++ E+  I +     K++RLV+  +  P G    L +V++ + + A+ A 
Sbjct: 20  LFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKG----LAYVEYENESQASQAV 75
Query: 194 --MDALQGQSNII 204
             MD +  + NII
Sbjct: 76  MKMDGMTIKENII 88

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	235
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	7e-10
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	5e-09
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	6e-09
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	8e-09
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-08
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	2e-08
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	3e-08
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	3e-08
2dis_A	109	Unnamed protein product; structural genomics, RRM	4e-08
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	1e-07
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	1e-07
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	2e-07
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	2e-07
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	2e-07
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	2e-07
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	2e-07
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	2e-07
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-07
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	3e-07
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	3e-07
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	4e-07
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	7e-07
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	7e-07
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	2e-05
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	7e-07
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	7e-07
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	9e-07
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	1e-06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	1e-06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	8e-05
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	1e-06
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	2e-06
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	2e-06
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	3e-06
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	3e-06
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	3e-06
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	3e-06
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	4e-06
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	5e-06
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	7e-06
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	8e-06
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	9e-06
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	9e-06
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	9e-06
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	1e-05
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	1e-05
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	1e-05
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	2e-05
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	2e-05
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	2e-05
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	2e-05
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	2e-05
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	2e-05
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	2e-05
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	3e-05
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	3e-05
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	3e-05
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	3e-05
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	3e-05
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	4e-05
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	4e-05
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	4e-05
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	4e-05
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	4e-05
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	4e-05
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	4e-05
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	5e-05
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	5e-05
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	5e-05
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	7e-04
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	5e-05
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	5e-05
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	6e-05
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	6e-05
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	7e-05
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	7e-05
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	7e-05
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	7e-05
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	7e-05
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	8e-05
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	9e-05
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	9e-05
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	9e-05
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	9e-05
2div_A	99	TRNA selenocysteine associated protein; structural	1e-04
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	1e-04
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	1e-04
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	1e-04
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	1e-04
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	1e-04
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	2e-04
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	2e-04
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	2e-04
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	2e-04
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	2e-04
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-04
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	4e-04
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	2e-04
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	2e-04
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-04
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	2e-04
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	2e-04
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	3e-04
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	3e-04
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	3e-04
1x4e_A	85	RNA binding motif, single-stranded interacting pro	3e-04
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	3e-04
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	3e-04
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	5e-04
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	7e-04
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	8e-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 = 53.9 bits (130), Expect = 7e-10
 Identities = 17/73 (23%), Positives = 31/73 (42%), Gaps = 6/73 (8%)

Query: 127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVS 186
           LPP+ +  L++  LP   +  E+  IF  +   +++R+        G       +V +  
Sbjct: 3   LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVG-NTPETRG-----TAYVVYED 56

Query: 187 PAHAATAMDALQG 199
              A  A+D L G
Sbjct: 57  IFDAKNAVDHLSG 69

>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 = 52.2 bits (125), Expect = 5e-09
 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

>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 = 51.2 bits (123), Expect = 6e-09
 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

>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 = 53.0 bits (127), Expect = 8e-09
 Identities = 22/119 (18%), Positives = 41/119 (34%), Gaps = 13/119 (10%)

Query: 82  ARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLP 141
           ++H +  +P    +D  +      D G S   R    G    +   PP  S+TL +  +P
Sbjct: 76  SKHQNVQLPREGQEDQGL----TKDYGNSPLHRFKKPGSKNFQNIFPP--SATLHLSNIP 129

Query: 142 SDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
              S  ++  +F    G  +     ++ R        +  +   S   A  A+  L   
Sbjct: 130 PSVSEEDLKVLFSSNGGVVKGFKFFQKDRK-------MALIQMGSVEEAVQALIDLHNH 181

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 49.2 bits (118), Expect = 2e-08
 Identities = 12/82 (14%), Positives = 27/82 (32%), Gaps = 7/82 (8%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPF--VGYKEVRLVS-KESRHPGGDPLILCFVDF 184
                 T+ +  +        +     P+  +    +RL+  K+++   G      FV  
Sbjct: 5   HHHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRG----FAFVQL 60

Query: 185 VSPAHAATAMDALQGQSNIICL 206
            S   A+  +  LQ     + +
Sbjct: 61  SSAMDASQLLQILQSLHPPLKI 82

>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 = 49.6 bits (119), Expect = 2e-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

>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 = 49.2 bits (118), Expect = 3e-08
 Identities = 19/83 (22%), Positives = 28/83 (33%), Gaps = 5/83 (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 ILCFVDFVSPAHAATAMDALQGQ 200
               V F S   A  A+  L  +
Sbjct: 60  --AMVAFESRDEATAAVIDLNDR 80

>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 = 48.8 bits (117), Expect = 3e-08
 Identities = 19/83 (22%), Positives = 28/83 (33%), Gaps = 5/83 (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 ILCFVDFVSPAHAATAMDALQGQ 200
               V F S   A  A+  L  +
Sbjct: 60  --AMVAFESRDEATAAVIDLNDR 80

>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 = 49.0 bits (117), Expect = 4e-08
 Identities = 15/81 (18%), Positives = 26/81 (32%), Gaps = 1/81 (1%)

Query: 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHA 190
            +  LF+ G+P    R E+              +V   +     +     FV++ S   A
Sbjct: 7   GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGF-AFVEYESHRAA 65

Query: 191 ATAMDALQGQSNIICLSNLVV 211
           A A   L      +    + V
Sbjct: 66  AMARRKLMPGRIQLWGHQIAV 86

>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 = 49.1 bits (118), Expect = 1e-07
 Identities = 19/88 (21%), Positives = 38/88 (43%), Gaps = 8/88 (9%)

Query: 113 DRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHP 172
              + L   +        A+ TL  + L  + +  E+  +F   +   E+RLVS++ +  
Sbjct: 80  GNEIKLEKPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDAL---EIRLVSQDGKSK 136

Query: 173 GGDPLILCFVDFVSPAHAATAMDALQGQ 200
           G     + +++F S A A   ++  QG 
Sbjct: 137 G-----IAYIEFKSEADAEKNLEEKQGA 159

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 47.9 bits (114), Expect = 1e-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

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 47.4 bits (113), Expect = 2e-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

>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 = 46.9 bits (112), 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 = 47.6 bits (113), Expect = 2e-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

>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 = 47.0 bits (112), Expect = 2e-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

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 46.7 bits (111), Expect = 2e-07
 Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 8/74 (10%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
               ++ ++V  LP D    ++    R   G   +RL  +  R          F+ +   
Sbjct: 15  GAPLAADVYVGNLPRDARVSDLKRALREL-GSVPLRLTWQGPRRR-------AFLHYPDS 66

Query: 188 AHAATAMDALQGQS 201
           A A  A+  LQG  
Sbjct: 67  AAAQQAVSCLQGLR 80

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

 Score = 46.7 bits (111), Expect = 2e-07
 Identities = 15/83 (18%), Positives = 26/83 (31%), Gaps = 7/83 (8%)

Query: 117 GLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDP 176
           G  G    VP        L +  +P       +  +   +   +    V+ +S       
Sbjct: 1   GSSGSSGSVP-KRQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDS--ETA-- 55

Query: 177 LILCFVDFVSPAHAATAMDALQG 199
             +  V + S   A  A+D L G
Sbjct: 56  --VVNVTYSSKDQARQALDKLNG 76

>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 = 48.8 bits (116), Expect = 2e-07
 Identities = 19/96 (19%), Positives = 32/96 (33%), Gaps = 9/96 (9%)

Query: 105 MDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRL 164
            D G S   R    G    +   PP  S+TL +  +P   S  ++  +F    G  +   
Sbjct: 126 KDYGNSPLHRFKKPGSKNFQNIFPP--SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFK 183

Query: 165 VSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
             ++ R        +  +   S   A  A+  L   
Sbjct: 184 FFQKDRK-------MALIQMGSVEEAVQALIDLHNH 212

>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 = 47.4 bits (113), Expect = 3e-07
 Identities = 23/117 (19%), Positives = 38/117 (32%), Gaps = 7/117 (5%)

Query: 85  MSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDC 144
           M             +    G         + +G G         PD +  L V GL    
Sbjct: 1   MGSSHHHHHHSSGLV--PRGSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYT 58

Query: 145 SRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
           + R++  +F  +    +V +V  ++SR   G      FV F +   A  A +   G 
Sbjct: 59  TERDLREVFSKYGPIADVSIVYDQQSRRSRG----FAFVYFENVDDAKEAKERANGM 111

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 46.3 bits (110), Expect = 3e-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

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 46.1 bits (110), Expect = 4e-07
 Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 4/73 (5%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
                  LF+ GLP  C++ E+  I +     K++RLV+  +  P G    L +V++ + 
Sbjct: 13  TSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKG----LAYVEYENE 68

Query: 188 AHAATAMDALQGQ 200
           + A+ A+  + G 
Sbjct: 69  SQASQAVMKMDGM 81

>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 = 45.3 bits (108), Expect = 7e-07
 Identities = 13/80 (16%), Positives = 28/80 (35%), Gaps = 7/80 (8%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           G S        S TL +  L    +   +  +F        +++   ++    G      
Sbjct: 4   GSSGNSTWSGESKTLVLSNLSYSATEETLQEVFEK---ATFIKVPQNQNGKSKG----YA 56

Query: 181 FVDFVSPAHAATAMDALQGQ 200
           F++F S   A  A+++   +
Sbjct: 57  FIEFASFEDAKEALNSCNKR 76

>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 = 47.9 bits (113), Expect = 7e-07
 Identities = 29/123 (23%), Positives = 47/123 (38%), Gaps = 8/123 (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 QGQ 200
           QG 
Sbjct: 265 QGF 267

>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 = 43.7 bits (102), Expect = 2e-05
 Identities = 16/76 (21%), Positives = 31/76 (40%), Gaps = 10/76 (13%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRP-FVGYKEVR--LVSKESRHPGGDPLILCFVDF 184
            P  + T+++  L     + E+       F  + ++   LVS+  +  G       FV F
Sbjct: 7   RP--NHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRG-----QAFVIF 59

Query: 185 VSPAHAATAMDALQGQ 200
              + A  A+ ++QG 
Sbjct: 60  KEVSSATNALRSMQGF 75

>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 = 45.3 bits (108), Expect = 7e-07
 Identities = 19/71 (26%), Positives = 28/71 (39%), Gaps = 5/71 (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 ATAMDALQGQS 201
             A   + GQ 
Sbjct: 64  VKAYAEVDGQV 74

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Length = 135

 Score = 46.3 bits (110), Expect = 7e-07
 Identities = 25/125 (20%), Positives = 41/125 (32%), Gaps = 15/125 (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 ALQGQ 200
           A+ G 
Sbjct: 108 AMDGA 112

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

 Score = 45.4 bits (108), Expect = 9e-07
 Identities = 18/82 (21%), Positives = 32/82 (39%), Gaps = 5/82 (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 CFVDFVSPAHAATAMDALQGQS 201
            F  F++   A   + A   ++
Sbjct: 60  AFAQFMTQEAAQKCLAAASLEA 81

>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 = 45.9 bits (109), Expect = 1e-06
 Identities = 21/94 (22%), Positives = 35/94 (37%), Gaps = 5/94 (5%)

Query: 109 PSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-K 167
             ++ R     G   E       S TL+V  L    +  ++  +F      K++ +   K
Sbjct: 16  ELSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDK 75

Query: 168 ESRHPGGDPLILCFVDFVSPAHAATAMDALQGQS 201
             +   G     CFV++ S A A  AM  + G  
Sbjct: 76  MKKTACG----FCFVEYYSRADAENAMRYINGTR 105

>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 = 47.3 bits (113), Expect = 1e-06
 Identities = 15/81 (18%), Positives = 31/81 (38%), Gaps = 5/81 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLVSKESRHPGGDPLIL 179
           G++E+ +      TL++   P   ++R +  + +   V    +RL S             
Sbjct: 106 GQNEIIVSHLTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRR----F 161

Query: 180 CFVDFVSPAHAATAMDALQGQ 200
            ++D  S   A   ++ L G 
Sbjct: 162 AYIDVTSKEDARYCVEKLNGL 182

>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 = 41.9 bits (99), Expect = 8e-05
 Identities = 11/77 (14%), Positives = 25/77 (32%), Gaps = 5/77 (6%)

Query: 123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV 182
           +E        +T+ V+ LP   ++ +V   F+       V +     ++          +
Sbjct: 32  NEALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFR-----FARI 86

Query: 183 DFVSPAHAATAMDALQG 199
           +F     A  A+     
Sbjct: 87  EFARYDGALAAITKTHK 103

>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 = 44.6 bits (106), Expect = 1e-06
 Identities = 21/86 (24%), Positives = 32/86 (37%), Gaps = 10/86 (11%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPG---GD 175
             G S   LP     T F+  LP D +   +   FR       VRL  +E  +P    G 
Sbjct: 2   SSGSSGSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGL-NISAVRLP-REPSNPERLKG- 58

Query: 176 PLILCFVDFVSPAHAATAMDALQGQS 201
                + +F       +A+ +L  +S
Sbjct: 59  ---FGYAEFEDLDSLLSAL-SLNEES 80

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 44.5 bits (105), Expect = 2e-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

>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 = 44.2 bits (105), Expect = 2e-06
 Identities = 17/85 (20%), Positives = 26/85 (30%), Gaps = 8/85 (9%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV--SKESRHPGGDP 176
                   LP     T F+  LP D +   +   FR       VRL           G  
Sbjct: 6   HHHHHRSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGL-NISAVRLPREPSNPERLKG-- 62

Query: 177 LILCFVDFVSPAHAATAMDALQGQS 201
               + +F       +A+ +L  +S
Sbjct: 63  --FGYAEFEDLDSLLSAL-SLNEES 84

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score = 44.1 bits (104), 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

>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 = 44.1 bits (104), Expect = 3e-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

>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 = 43.8 bits (104), Expect = 3e-06
 Identities = 18/82 (21%), Positives = 27/82 (32%), Gaps = 5/82 (6%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLI 178
           G         D   TL V+ L    S   +  +F  +    +V +     ++ P G    
Sbjct: 1   GSSGSSGPDVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRG---- 56

Query: 179 LCFVDFVSPAHAATAMDALQGQ 200
             FV F     A  A  A+ G 
Sbjct: 57  FAFVRFHDRRDAQDAEAAMDGA 78

>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 = 43.3 bits (103), Expect = 3e-06
 Identities = 21/81 (25%), Positives = 33/81 (40%), Gaps = 5/81 (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 CFVDFVSPAHAATAMDALQGQ 200
            FV F +   A  A +   G 
Sbjct: 60  AFVYFENVDDAKEAKERANGM 80

>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 = 43.0 bits (102), Expect = 4e-06
 Identities = 18/73 (24%), Positives = 35/73 (47%), Gaps = 8/73 (10%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
              A+ TL  + L  + +  E+  +F   +   E+RLVS++ +  G     + +++F S 
Sbjct: 12  KVRAARTLLAKNLSFNITEDELKEVFEDAL---EIRLVSQDGKSKG-----IAYIEFKSE 63

Query: 188 AHAATAMDALQGQ 200
           A A   ++  QG 
Sbjct: 64  ADAEKNLEEKQGA 76

>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 = 43.4 bits (103), Expect = 5e-06
 Identities = 14/75 (18%), Positives = 28/75 (37%), Gaps = 7/75 (9%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV--SKESRHPGGDPLILCFVDFV 185
           P + +  L+++ L    + R++  +F  F   K   +       R  G       F+ F 
Sbjct: 21  PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRG-----QAFITFP 75

Query: 186 SPAHAATAMDALQGQ 200
           +   A  A+  + G 
Sbjct: 76  NKEIAWQALHLVNGY 90

>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 = 42.7 bits (101), Expect = 7e-06
 Identities = 18/85 (21%), Positives = 32/85 (37%), Gaps = 6/85 (7%)

Query: 117 GLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDP 176
           G+ GG        +    ++V  LP D   +++  +F  +   +++ L  K  R      
Sbjct: 7   GMSGGGVIRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDL--KNRRGGPP-- 62

Query: 177 LILCFVDFVSPAHAATAMDALQGQS 201
               FV+F  P  A  A+    G  
Sbjct: 63  --FAFVEFEDPRDAEDAVYGRDGYD 85

>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 = 43.7 bits (103), Expect = 8e-06
 Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 8/73 (10%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
                  ++V  L ++ ++ E+   F  +   + V +       PG       FV+F  P
Sbjct: 69  SCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVA---RNPPG-----FAFVEFEDP 120

Query: 188 AHAATAMDALQGQ 200
             AA A+  L G+
Sbjct: 121 RDAADAVRELDGR 133

>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 = 42.5 bits (100), Expect = 9e-06
 Identities = 16/68 (23%), Positives = 23/68 (33%), Gaps = 9/68 (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 TAMDALQG 199
            A   L  
Sbjct: 61  KAFRHLAY 68

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 42.3 bits (100), Expect = 9e-06
 Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 7/83 (8%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLI 178
            G S   LP +   T +V  LP +  + ++  IF+     + VRLV  K++    G    
Sbjct: 3   SGSSGKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKG---- 57

Query: 179 LCFVDFVSPAHAATAMDALQGQS 201
            C+V+F        A+    G  
Sbjct: 58  FCYVEFDEVDSLKEAL-TYDGAL 79

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 42.8 bits (101), Expect = 9e-06
 Identities = 19/78 (24%), Positives = 33/78 (42%), Gaps = 13/78 (16%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPF--------VGYKEVRLVS-KESRHPGGDPLILCFV 182
           ++T+FV+GL  + +   VA  F+           G   + L + +E+    G+      V
Sbjct: 7   NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGE----ATV 62

Query: 183 DFVSPAHAATAMDALQGQ 200
            F  P  A  A+D   G+
Sbjct: 63  SFDDPPSAKAAIDWFDGK 80

>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 = 43.3 bits (102), Expect = 1e-05
 Identities = 23/121 (19%), Positives = 38/121 (31%), Gaps = 13/121 (10%)

Query: 81  SARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGL 140
            A+H  G       +      I   +   +  D  L  G  RS           LFV  +
Sbjct: 29  KAKHRKGRGFGSDSNTRE--AIHSYERVRNEDDDELEPGPQRSV------EGWILFVTSI 80

Query: 141 PSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHAATAMDALQG 199
             +    E+   F  +   K + L   + +    G       V++ +   A  A +AL G
Sbjct: 81  HEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKG----YALVEYETHKQALAAKEALNG 136

Query: 200 Q 200
            
Sbjct: 137 A 137

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

 Score = 42.0 bits (99), 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

>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 = 41.4 bits (98), Expect = 1e-05
 Identities = 18/83 (21%), Positives = 34/83 (40%), Gaps = 6/83 (7%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPL 177
           G       L P   ST++V  LP   +  ++  IF  +    +V ++  K++R   G   
Sbjct: 4   GSSGMSGGLAPS-KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKG--- 59

Query: 178 ILCFVDFVSPAHAATAMDALQGQ 200
            + F+ F+    A     A+  +
Sbjct: 60  -VAFILFLDKDSAQNCTRAINNK 81

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 99

 Score = 41.5 bits (98), Expect = 2e-05
 Identities = 17/67 (25%), Positives = 23/67 (34%), Gaps = 9/67 (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 MDALQGQ 200
           M AL G+
Sbjct: 68  MKALNGK 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 = 41.5 bits (98), Expect = 2e-05
 Identities = 21/90 (23%), Positives = 34/90 (37%), Gaps = 14/90 (15%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIF--------RPFVGYKEVRLVS-KESR 170
           G         D ++T+FV+GL  + +   VA  F            G   + L + +E+ 
Sbjct: 2   GHHHHHHSHSD-NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETG 60

Query: 171 HPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
              G+      V F  P  A  A+D   G+
Sbjct: 61  KLKGE----ATVSFDDPPSAKAAIDWFDGK 86

>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 = 40.7 bits (96), Expect = 2e-05
 Identities = 15/84 (17%), Positives = 32/84 (38%), Gaps = 11/84 (13%)

Query: 121 GRSEVPLPPDAS-STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
           G S      D + +TL+V GL    +  ++ + F  F   + + +V ++           
Sbjct: 1   GSSGSS-GEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC--------- 50

Query: 180 CFVDFVSPAHAATAMDALQGQSNI 203
            F+ F +   A  A +    +  +
Sbjct: 51  AFIQFATRQAAEVAAEKSFNKLIV 74

>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 = 41.0 bits (97), Expect = 2e-05
 Identities = 11/71 (15%), Positives = 26/71 (36%), Gaps = 6/71 (8%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS--KESRHPGGDPLILCFVDFVSPAH 189
            + + +  L  + ++  +  IF  +   K + +           G      +V+F +P  
Sbjct: 4   PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKG----YAYVEFENPDE 59

Query: 190 AATAMDALQGQ 200
           A  A+  + G 
Sbjct: 60  AEKALKHMDGG 70

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 41.8 bits (98), Expect = 2e-05
 Identities = 9/79 (11%), Positives = 25/79 (31%), Gaps = 10/79 (12%)

Query: 126 PLPPDASSTLFVEGLPSDCS----RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCF 181
           P   + S  + +  +  +      +  +  +        ++  V     + G       +
Sbjct: 23  PPHTEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIV-VDLSDDNSG-----KAY 76

Query: 182 VDFVSPAHAATAMDALQGQ 200
           + F +   A   ++A QG 
Sbjct: 77  IVFATQESAQAFVEAFQGY 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 = 41.1 bits (97), Expect = 2e-05
 Identities = 18/80 (22%), Positives = 27/80 (33%), Gaps = 5/80 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           G S           L V  +P      ++  +F  F    +V ++  E    G       
Sbjct: 4   GSSGNSESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKG-----FG 58

Query: 181 FVDFVSPAHAATAMDALQGQ 200
           FV F + A A  A + L G 
Sbjct: 59  FVTFENSADADRAREKLHGT 78

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 42.6 bits (101), Expect = 2e-05
 Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 9/71 (12%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV----SKESRHPGGDPLILCFVDFVSPAH 189
            +FV  +P   S +++  +F  +    E+ ++        +  G      CFV F +   
Sbjct: 5   KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKG-----CCFVTFYTRKA 59

Query: 190 AATAMDALQGQ 200
           A  A +AL   
Sbjct: 60  ALEAQNALHNM 70

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 41.1 bits (97), Expect = 3e-05
 Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 5/82 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLIL 179
           G S           LFV GL  D + + +  +F  +    EV +V  +E++   G     
Sbjct: 1   GSSGSSGMASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRG----F 56

Query: 180 CFVDFVSPAHAATAMDALQGQS 201
            FV F +   A  AM A+ G+S
Sbjct: 57  GFVTFENIDDAKDAMMAMNGKS 78

>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 = 40.7 bits (96), Expect = 3e-05
 Identities = 16/85 (18%), Positives = 32/85 (37%), Gaps = 15/85 (17%)

Query: 116 LGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGD 175
             +G G++     P  ++ L+V GL  + S   +A  F  F   + +  V    +     
Sbjct: 7   GKIGYGKA----NP--TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHV----KGDS-- 54

Query: 176 PLILCFVDFVSPAHAATAMDALQGQ 200
                ++ + S   A  A   ++G 
Sbjct: 55  ---FAYIQYESLDAAQAACAKMRGF 76

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 40.7 bits (96), Expect = 3e-05
 Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 4/71 (5%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC--FVDFVSPAH 189
           SS LF++ L    +   +  +F      K   +  K  ++  G  L +   FV++  P  
Sbjct: 5   SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKK--KNKAGVLLSMGFGFVEYKKPEQ 62

Query: 190 AATAMDALQGQ 200
           A  A+  LQG 
Sbjct: 63  AQKALKQLQGH 73

>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 = 40.5 bits (95), Expect = 3e-05
 Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 10/68 (14%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           SS + V+ LP D + +EV  + + +   K   +     R+         FV  ++   A 
Sbjct: 5   SSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYV----DRNKR-----TAFVTLLNGEQAQ 54

Query: 192 TAMDALQG 199
            A+     
Sbjct: 55  NAIQMFHQ 62

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 41.5 bits (97), Expect = 3e-05
 Identities = 22/118 (18%), Positives = 33/118 (27%), Gaps = 20/118 (16%)

Query: 80  QSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEG 139
               H S G+       PR   +  M  G          G G   +         + + G
Sbjct: 5   HHHHHHSSGLV------PRGSHMASMTGGQQM-------GRGSMMLGPEGGEGFVVKLRG 51

Query: 140 LPSDCSRREVAHIFRPF---VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           LP  CS  +V +         G   V  +        G+     FV+  S      A+
Sbjct: 52  LPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGE----AFVELGSEDDVKMAL 105

>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 = 40.6 bits (95), Expect = 4e-05
 Identities = 14/94 (14%), Positives = 34/94 (36%), Gaps = 9/94 (9%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
            G S   +    S  L +  LP + +  EV  +  PF     + ++  +++         
Sbjct: 3   SGSSGDKMDGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQ--------- 53

Query: 180 CFVDFVSPAHAATAMDALQGQSNIICLSNLVVFY 213
            F++  +   A T ++     +  +    + + Y
Sbjct: 54  AFLELATEEAAITMVNYYSAVTPHLRNQPIYIQY 87

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 41.8 bits (99), Expect = 4e-05
 Identities = 20/103 (19%), Positives = 32/103 (31%), Gaps = 15/103 (14%)

Query: 109 PSAKDRALGLGG----------GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVG 158
                +A+   G           R     P   +  LF+ GLP+  +  +V  +   F  
Sbjct: 61  VDETTQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGP 120

Query: 159 YKEVRLVS-KESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
            K   LV    +    G      F ++V       A+  L G 
Sbjct: 121 LKAFNLVKDSATGLSKG----YAFCEYVDINVTDQAIAGLNGM 159

>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 = 40.2 bits (95), Expect = 4e-05
 Identities = 17/73 (23%), Positives = 30/73 (41%), Gaps = 7/73 (9%)

Query: 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KES-RHPGGDPLILCFVDFVSP 187
                L+V GL  +   + +   F PF    ++++    E+ +H G       FV+F   
Sbjct: 5   TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRG-----FAFVEFELA 59

Query: 188 AHAATAMDALQGQ 200
             AA A+D +   
Sbjct: 60  EDAAAAIDNMNES 72

>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 = 40.3 bits (95), Expect = 4e-05
 Identities = 13/75 (17%), Positives = 23/75 (30%), Gaps = 5/75 (6%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFV 185
                    LF+  L  + S  E+           ++ +V   +           +VDF 
Sbjct: 11  GSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRK----FGYVDFE 66

Query: 186 SPAHAATAMDALQGQ 200
           S      A++ L G 
Sbjct: 67  SAEDLEKALE-LTGL 80

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Length = 177

 Score = 41.8 bits (98), Expect = 4e-05
 Identities = 22/130 (16%), Positives = 32/130 (24%), Gaps = 6/130 (4%)

Query: 73  ISSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALG--LGGGRSEVPLPPD 130
           I      +      G   +RP               P          L           +
Sbjct: 27  IKLNRNQRRVNRGGGPRRNRPAIARGGRNRPAPYSRPKPLPDKWQHDLFDSGCGGGEGVE 86

Query: 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHA 190
             + L V  L    S  ++  +F  F   K+  +    S    G       V F   A A
Sbjct: 87  TGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLG----TADVHFERRADA 142

Query: 191 ATAMDALQGQ 200
             AM   +G 
Sbjct: 143 LKAMKQYKGV 152

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 40.3 bits (95), Expect = 4e-05
 Identities = 18/82 (21%), Positives = 26/82 (31%), Gaps = 9/82 (10%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLI 178
             G S         S LFV  LP D +  E+  +F  +    EV +     +  G     
Sbjct: 2   SSGSSGGEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIH----KDKG----- 52

Query: 179 LCFVDFVSPAHAATAMDALQGQ 200
             F+   +   A  A   L   
Sbjct: 53  FGFIRLETRTLAEIAKVELDNM 74

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Length = 158

 Score = 41.4 bits (97), Expect = 4e-05
 Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 5/73 (6%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSP 187
            +  ++L V+ L    S   +  +F  +    +V +   + ++   G      FV F   
Sbjct: 67  VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRG----FAFVRFHDK 122

Query: 188 AHAATAMDALQGQ 200
             A  AMDA+ G 
Sbjct: 123 RDAEDAMDAMDGA 135

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 40.7 bits (95), Expect = 5e-05
 Identities = 14/104 (13%), Positives = 30/104 (28%), Gaps = 9/104 (8%)

Query: 110 SAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKES 169
           S+  +   L     E       S  +   GL +  SR ++  +         + +   + 
Sbjct: 5   SSGAKHTLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKP 64

Query: 170 RHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFY 213
                      F  + +   +  A   L G+  +  L   +  Y
Sbjct: 65  ---------YSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLY 99

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

 Score = 40.5 bits (95), Expect = 5e-05
 Identities = 14/74 (18%), Positives = 23/74 (31%), Gaps = 5/74 (6%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHP-GGDPLILCFVDFVSP 187
                 +    L  +     +  + R +   +EV ++     HP     L L  V F S 
Sbjct: 3   QIPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEIL----LHPRTRKHLGLARVLFTST 58

Query: 188 AHAATAMDALQGQS 201
             A   +  L   S
Sbjct: 59  RGAKETVKNLHLTS 72

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 41.9 bits (99), Expect = 5e-05
 Identities = 19/96 (19%), Positives = 31/96 (32%), Gaps = 7/96 (7%)

Query: 107 PGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV- 165
                      +        + PD++  LF+ GLP+  +  +V  +   F   K   LV 
Sbjct: 89  QPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVK 148

Query: 166 -SKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
            S      G       F ++V       A+  L G 
Sbjct: 149 DSATGLSKG-----YAFCEYVDINVTDQAIAGLNGM 179

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 38.5 bits (90), Expect = 7e-04
 Identities = 11/78 (14%), Positives = 23/78 (29%), Gaps = 11/78 (14%)

Query: 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRL------VSKESRHPGGDPLILCFVD 183
             +  L+V  +P   +   +   F   +    +        ++ +            F++
Sbjct: 2   AMARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN----FAFLE 57

Query: 184 FVSPAHAATAMDALQGQS 201
           F S      AM A  G  
Sbjct: 58  FRSVDETTQAM-AFDGII 74

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 40.6 bits (95), Expect = 5e-05
 Identities = 17/97 (17%), Positives = 29/97 (29%), Gaps = 8/97 (8%)

Query: 104 GMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVR 163
           G           L   G        P     + ++ LP  CS +++  + R      E  
Sbjct: 2   GSSHHHHHHSSGLVPRGSHM--SKLPAKRYRITMKNLPEGCSWQDLKDLARENSL--ETT 57

Query: 164 LVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
             S  +R   G       ++F S      A++ L   
Sbjct: 58  FSSVNTRDFDG----TGALEFPSEEILVEALERLNNI 90

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 40.3 bits (95), Expect = 5e-05
 Identities = 17/73 (23%), Positives = 30/73 (41%), Gaps = 7/73 (9%)

Query: 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KES-RHPGGDPLILCFVDFVSP 187
                L+V GL  +   + +   F PF    ++++    E+ +H G       FV+F   
Sbjct: 10  TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRG-----FAFVEFELA 64

Query: 188 AHAATAMDALQGQ 200
             AA A+D +   
Sbjct: 65  EDAAAAIDNMNES 77

>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 = 39.9 bits (94), Expect = 6e-05
 Identities = 18/85 (21%), Positives = 29/85 (34%), Gaps = 6/85 (7%)

Query: 117 GLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGD 175
           G  G     P   +A  T+FV  L +      +  +F       +V +   +E +     
Sbjct: 1   GSSGSSGMFPAQEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKS-- 58

Query: 176 PLILCFVDFVSPAHAATAMDALQGQ 200
                FV F  P   + A+  L G 
Sbjct: 59  ---FGFVCFKHPESVSYAIALLNGI 80

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 102

 Score = 39.9 bits (94), Expect = 6e-05
 Identities = 24/81 (29%), Positives = 34/81 (41%), Gaps = 8/81 (9%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLIL 179
           G S        S TLFV+GL  D +   +   F    G    R+V+ +E+    G     
Sbjct: 4   GSSGPNARSQPSKTLFVKGLSEDTTEETLKESFD---GSVRARIVTDRETGSSKG----F 56

Query: 180 CFVDFVSPAHAATAMDALQGQ 200
            FVDF S   A  A +A++  
Sbjct: 57  GFVDFNSEEDAKAAKEAMEDG 77

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens} Length = 108

 Score = 40.0 bits (94), Expect = 7e-05
 Identities = 16/79 (20%), Positives = 30/79 (37%), Gaps = 5/79 (6%)

Query: 123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCF 181
           + +         L+V  L  + +   +  IF PF   + ++L+   E+    G      F
Sbjct: 17  NNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKG----YGF 72

Query: 182 VDFVSPAHAATAMDALQGQ 200
           + F     A  A++ L G 
Sbjct: 73  ITFSDSECAKKALEQLNGF 91

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

 Score = 40.0 bits (94), Expect = 7e-05
 Identities = 14/74 (18%), Positives = 30/74 (40%), Gaps = 12/74 (16%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGY-KEVRLVSKESRHPGGDPLILCFVDFVS 186
           PP   +T ++  +P   +  ++  +F+ F G+  + +         G      CF+ + +
Sbjct: 24  PPR-VTTAYIGNIPHFATEADLIPLFQNF-GFILDFKHY----PEKG-----CCFIKYDT 72

Query: 187 PAHAATAMDALQGQ 200
              AA  + AL   
Sbjct: 73  HEQAAVCIVALANF 86

>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 = 39.9 bits (94), Expect = 7e-05
 Identities = 16/78 (20%), Positives = 32/78 (41%), Gaps = 12/78 (15%)

Query: 128 PPDA--SSTLFVEGLPSDCS----RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCF 181
            P+   + T+++  L         ++ +  IF  F    ++  VS+  +  G       F
Sbjct: 2   VPETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDIL-VSRSLKMRGQ-----AF 55

Query: 182 VDFVSPAHAATAMDALQG 199
           V F   + A  A+ ++QG
Sbjct: 56  VIFKEVSSATNALRSMQG 73

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 39.9 bits (94), Expect = 7e-05
 Identities = 20/81 (24%), Positives = 31/81 (38%), Gaps = 5/81 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLIL 179
           G S      D ++T+ V  L  D    ++  +FRPF     + L   K +    G     
Sbjct: 4   GSSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKG----F 59

Query: 180 CFVDFVSPAHAATAMDALQGQ 200
            F+ F     AA A+  + G 
Sbjct: 60  AFISFHRREDAARAIAGVSGF 80

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 39.9 bits (94), Expect = 7e-05
 Identities = 17/81 (20%), Positives = 31/81 (38%), Gaps = 5/81 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLIL 179
           G    P        LFV G+  + +  ++   F  +   K + L   + + +  G     
Sbjct: 12  GDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKG----Y 67

Query: 180 CFVDFVSPAHAATAMDALQGQ 200
             V++ +   A  AM+ L GQ
Sbjct: 68  TLVEYETYKEAQAAMEGLNGQ 88

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Length = 96

 Score = 39.5 bits (93), Expect = 8e-05
 Identities = 10/70 (14%), Positives = 29/70 (41%), Gaps = 5/70 (7%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHA 190
           S  +++  +P D +  ++  +         ++++   ++    G      F++F     +
Sbjct: 2   SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKG----YAFIEFRDLESS 57

Query: 191 ATAMDALQGQ 200
           A+A+  L G 
Sbjct: 58  ASAVRNLNGY 67

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 95

 Score = 39.5 bits (93), Expect = 9e-05
 Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 5/72 (6%)

Query: 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPA 188
             SS L+V  L  + +   +  IF PF     + L+   ++    G      F+ F    
Sbjct: 3   SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKG----YGFITFSDSE 58

Query: 189 HAATAMDALQGQ 200
            A  A++ L G 
Sbjct: 59  CARRALEQLNGF 70

>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 = 39.6 bits (93), Expect = 9e-05
 Identities = 14/82 (17%), Positives = 30/82 (36%), Gaps = 5/82 (6%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLI 178
           G      +    +  LF+  +P +   +++  +F  F    E+ ++  + +    G    
Sbjct: 1   GSSGSSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKG---- 56

Query: 179 LCFVDFVSPAHAATAMDALQGQ 200
             F+ +     A  A  AL  Q
Sbjct: 57  CAFLTYCERESALKAQSALHEQ 78

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D* Length = 110

 Score = 39.6 bits (93), Expect = 9e-05
 Identities = 15/76 (19%), Positives = 26/76 (34%), Gaps = 5/76 (6%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDF 184
           P        LFV  +  +    E+   F  +   K + L   + +    G       V++
Sbjct: 20  PQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKG----YALVEY 75

Query: 185 VSPAHAATAMDALQGQ 200
            +   A  A +AL G 
Sbjct: 76  ETHKQALAAKEALNGA 91

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 40.1 bits (94), Expect = 9e-05
 Identities = 19/109 (17%), Positives = 35/109 (32%), Gaps = 10/109 (9%)

Query: 97  PRIVGIGGMDPGPSAKDRALGLGGGRSEVPLP---PDASSTLFVEGLPSDCSRREVAHIF 153
             +  +               + GG                L+V GL  +   + +   F
Sbjct: 25  EILSNLPESVAYTCVNCTERHVDGGSGGSGGSGGSATTKRVLYVGGLAEEVDDKVLHAAF 84

Query: 154 RPFVGYKEVRLVS-KES-RHPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
            PF    ++++    E+ +H G       FV+F     AA A+D +   
Sbjct: 85  IPFGDITDIQIPLDYETEKHRG-----FAFVEFELAEDAAAAIDNMNES 128

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 39.2 bits (92), Expect = 1e-04
 Identities = 13/75 (17%), Positives = 30/75 (40%), Gaps = 6/75 (8%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPF-VGYKEVRLV-SKESRHPGGDPLILCFVDFV 185
               +++L++  L        ++  F         V+++ ++ +  P G     CFV+F 
Sbjct: 5   SSGMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAG----YCFVEFA 60

Query: 186 SPAHAATAMDALQGQ 200
             A A   +  + G+
Sbjct: 61  DLATAEKCLHKINGK 75

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 39.2 bits (92), Expect = 1e-04
 Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 5/76 (6%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDF 184
           P    +  ++FV  +P + +  ++  IF         RLV  +E+  P G      F ++
Sbjct: 2   PAVDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKG----YGFCEY 57

Query: 185 VSPAHAATAMDALQGQ 200
                A +AM  L G+
Sbjct: 58  QDQETALSAMRNLNGR 73

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score = 40.3 bits (94), Expect = 1e-04
 Identities = 14/130 (10%), Positives = 31/130 (23%), Gaps = 19/130 (14%)

Query: 74  SSYSGGQSARHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASS 133
           S    G    +     P  PV            P                      +  +
Sbjct: 9   SGVDLGTENLYFQSMEPPPPVRQEPSPKPNNKTPAILYTYSG------------LRNRRA 56

Query: 134 TLFVEGLPSDCSRREVAHIFRPF--VGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHA 190
            ++V       + +++  + R        E++    + +    G       V   S    
Sbjct: 57  AVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKG----YAEVVVASENSV 112

Query: 191 ATAMDALQGQ 200
              ++ L G+
Sbjct: 113 HKLLELLPGK 122

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D* Length = 126

 Score = 39.7 bits (93), Expect = 1e-04
 Identities = 17/82 (20%), Positives = 31/82 (37%), Gaps = 5/82 (6%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLI 178
            G    P        LFV G+  + +  ++   F  +   K + L   + + +  G    
Sbjct: 10  DGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKG---- 65

Query: 179 LCFVDFVSPAHAATAMDALQGQ 200
              V++ +   A  AM+ L GQ
Sbjct: 66  YTLVEYETYKEAQAAMEGLNGQ 87

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus} Length = 124

 Score = 39.7 bits (93), Expect = 1e-04
 Identities = 22/97 (22%), Positives = 30/97 (30%), Gaps = 8/97 (8%)

Query: 104 GMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVR 163
           G DP     D      GG        +  + L V  L    S  ++  +F  F   K+  
Sbjct: 11  GRDPDKWQHDLFDSGCGGGE----GVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAA 66

Query: 164 LVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
           +    S    G       V F   A A  AM   +G 
Sbjct: 67  VDYDRSGRSLG----TADVHFERRADALKAMKQYKGV 99

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 39.2 bits (92), Expect = 1e-04
 Identities = 15/81 (18%), Positives = 28/81 (34%), Gaps = 5/81 (6%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLIL 179
           G S      +  +T++V GL    S   +  +F          +   + +    G     
Sbjct: 4   GSSGPISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQG----Y 59

Query: 180 CFVDFVSPAHAATAMDALQGQ 200
            FV+F+S   A  A+  +   
Sbjct: 60  GFVEFLSEEDADYAIKIMDMI 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 = 40.2 bits (95), Expect = 2e-04
 Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 6/71 (8%)

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 HAATAMDALQG 199
            +  A+  L G
Sbjct: 57  DSQRAIKVLNG 67

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 38.9 bits (91), Expect = 2e-04
 Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 11/70 (15%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGY-KEVRLVSKESRHPGGDPLILCFVDFVSPAHA 190
           + T++  G+ S  + + +   F PF G   E+R+        G       FV F +   A
Sbjct: 25  NCTVYCGGIASGLTDQLMRQTFSPF-GQIMEIRVF----PEKG-----YSFVRFSTHESA 74

Query: 191 ATAMDALQGQ 200
           A A+ ++ G 
Sbjct: 75  AHAIVSVNGT 84

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 38.7 bits (90), Expect = 2e-04
 Identities = 12/95 (12%), Positives = 33/95 (34%), Gaps = 9/95 (9%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLI 178
           G            S  + +  LP D +  EV  +  PF     + ++  +++        
Sbjct: 3   GSHHHHHHGSGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQ-------- 54

Query: 179 LCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFY 213
             F++  +   A T ++     + ++    + + +
Sbjct: 55  -AFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQF 88

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 92

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 14/73 (19%), Positives = 22/73 (30%), Gaps = 11/73 (15%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
              AS+ L V  +   C+ +E+   F  +    E  +V               FV     
Sbjct: 6   SGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD-----------YAFVHMERA 54

Query: 188 AHAATAMDALQGQ 200
             A  A+  L   
Sbjct: 55  EDAVEAIRGLDNT 67

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 38.3 bits (90), Expect = 2e-04
 Identities = 14/73 (19%), Positives = 25/73 (34%), Gaps = 11/73 (15%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
               +  +FV  + + C+ +E+  +F       E  +V               FV     
Sbjct: 5   SSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD-----------YAFVHMEKE 53

Query: 188 AHAATAMDALQGQ 200
           A A  A+  L G+
Sbjct: 54  ADAKAAIAQLNGK 66

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

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 13/72 (18%), Positives = 26/72 (36%), Gaps = 10/72 (13%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
                 + + GLP D + +EV  +   +   K   +     ++ G       FV  ++  
Sbjct: 19  FRNRRKILIRGLPGDVTNQEVHDLLSDY-ELKYCFVD----KYKG-----TAFVTLLNGE 68

Query: 189 HAATAMDALQGQ 200
            A  A++A    
Sbjct: 69  QAEAAINAFHQS 80

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

 Score = 39.6 bits (93), Expect = 4e-04
 Identities = 17/72 (23%), Positives = 29/72 (40%), Gaps = 7/72 (9%)

Query: 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKES--RHPGGDPLILCFVDFVSPA 188
             + L V  LP   ++++   + RPF   +   LV  E   +  G       F +++   
Sbjct: 94  TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKG-----YGFAEYMKKD 148

Query: 189 HAATAMDALQGQ 200
            AA A   L G+
Sbjct: 149 SAARAKSDLLGK 160

>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 = 38.6 bits (90), Expect = 2e-04
 Identities = 13/93 (13%), Positives = 23/93 (24%), Gaps = 9/93 (9%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           G S        S  + V GL       ++      F     V ++  + +          
Sbjct: 4   GSSGSHHKVSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQ---------A 54

Query: 181 FVDFVSPAHAATAMDALQGQSNIICLSNLVVFY 213
            V+F +   A   +         I        Y
Sbjct: 55  LVEFENIDSAKECVTFAADVPVYIAGQQAFFNY 87

>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 = 17/71 (23%), Positives = 31/71 (43%), Gaps = 5/71 (7%)

Query: 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAH 189
           + + L V  LP + ++ E   +F      +  +LV  K +    G      FV+++ P  
Sbjct: 1   SKTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLG----YGFVNYIDPKD 56

Query: 190 AATAMDALQGQ 200
           A  A++ L G 
Sbjct: 57  AEKAINTLNGL 67

>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 = 38.7 bits (90), Expect = 2e-04
 Identities = 17/114 (14%), Positives = 40/114 (35%), Gaps = 11/114 (9%)

Query: 100 VGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGY 159
           +G        S+     G   G S     P  S  + +  LP D +  EV  +  PF   
Sbjct: 1   MGSSHHHHHHSSGLVPRGSHMGDSRSAGVP--SRVIHIRKLPIDVTEGEVISLGLPFGKV 58

Query: 160 KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFY 213
             + ++  +++          F++  +   A T ++     + ++    + + +
Sbjct: 59  TNLLMLKGKNQ---------AFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQF 103

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 93

 Score = 38.0 bits (89), Expect = 2e-04
 Identities = 12/76 (15%), Positives = 27/76 (35%), Gaps = 9/76 (11%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
                + L++  L    +  ++  +F      K    ++ +     G      FVD+   
Sbjct: 4   GSSGMNKLYIGNLSPAVTADDLRQLFGD---RKLP--LAGQVLLKSG----YAFVDYPDQ 54

Query: 188 AHAATAMDALQGQSNI 203
             A  A++ L G+  +
Sbjct: 55  NWAIRAIETLSGKVEL 70

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Length = 105

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 20/69 (28%), Positives = 26/69 (37%), Gaps = 4/69 (5%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
              LFV  L    S  +V  +F+PF    E  ++        G      FV F S   A 
Sbjct: 15  DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKG----CAFVKFSSHTEAQ 70

Query: 192 TAMDALQGQ 200
            A+ AL G 
Sbjct: 71  AAIHALHGS 79

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

 Score = 38.4 bits (90), Expect = 3e-04
 Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 11/69 (15%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           ++ LFV   P D    E+  IF PF   KEV++         G      FV+F     AA
Sbjct: 31  NTRLFVRPFPLDVQESELNEIFGPFGPMKEVKI-------LNG----FAFVEFEEAESAA 79

Query: 192 TAMDALQGQ 200
            A++ + G+
Sbjct: 80  KAIEEVHGK 88

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 38.5 bits (90), Expect = 3e-04
 Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 6/68 (8%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVSPAHAAT 192
           T+F   L +    R++   F      ++VR++S + SR   G    + +V+F        
Sbjct: 27  TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKG----IAYVEFCEIQSVPL 82

Query: 193 AMDALQGQ 200
           A+  L GQ
Sbjct: 83  AI-GLTGQ 89

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 15/88 (17%), Positives = 27/88 (30%), Gaps = 9/88 (10%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFV 185
           P    AS  + + GL       ++    + F     V ++ K+ +           V+F 
Sbjct: 15  PHKTPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQ---------ALVEFE 65

Query: 186 SPAHAATAMDALQGQSNIICLSNLVVFY 213
               A  A++        I      V Y
Sbjct: 66  DVLGACNAVNYAADNQIYIAGHPAFVNY 93

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 85

 Score = 37.5 bits (88), Expect = 3e-04
 Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 11/76 (14%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV----SKESRHPGGDPLILCFVDF 184
              SS L++ GL    + +++  + +P+      + +    + + +  G       FVDF
Sbjct: 2   SSGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYG-------FVDF 54

Query: 185 VSPAHAATAMDALQGQ 200
            SP+ A  A+ AL+  
Sbjct: 55  DSPSAAQKAVTALKAS 70

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 113

 Score = 38.2 bits (89), Expect = 3e-04
 Identities = 18/84 (21%), Positives = 33/84 (39%), Gaps = 13/84 (15%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPF--------VGYKEVRLVS-KESRHPGGDP 176
           P     +S ++V+GL    +  ++A  F+           G   + +   KE+  P GD 
Sbjct: 9   PDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGD- 67

Query: 177 LILCFVDFVSPAHAATAMDALQGQ 200
                V +  P  A  A++   G+
Sbjct: 68  ---ATVSYEDPPTAKAAVEWFDGK 88

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 37.5 bits (88), Expect = 3e-04
 Identities = 18/74 (24%), Positives = 29/74 (39%), Gaps = 5/74 (6%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS-KESRHPGGDPLILCFVDFVS 186
           P  +   +FV  L  + +   +A  F PF    + R+V    +    G      FV F +
Sbjct: 2   PLGSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKG----YGFVSFFN 57

Query: 187 PAHAATAMDALQGQ 200
              A  A+  + GQ
Sbjct: 58  KWDAENAIQQMGGQ 71

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

 Score = 37.3 bits (87), Expect = 5e-04
 Identities = 15/81 (18%), Positives = 29/81 (35%), Gaps = 12/81 (14%)

Query: 121 GRSEVPLPPDASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
               VP      S LF+  LP  + S+ ++  IF P+    ++ +               
Sbjct: 11  SSGLVPRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI------KNA-----F 59

Query: 180 CFVDFVSPAHAATAMDALQGQ 200
            F+ F +P     A++    +
Sbjct: 60  GFIQFDNPQSVRDAIEXESQE 80

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 38.3 bits (90), Expect = 7e-04
 Identities = 11/67 (16%), Positives = 25/67 (37%), Gaps = 6/67 (8%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV-SKESRHPGGDPLILCFVDFVSPAHAAT 192
            L+V  L    +   +   F+       ++++  K +++         FV++     A  
Sbjct: 2   VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVN-----YAFVEYHQSHDANI 56

Query: 193 AMDALQG 199
           A+  L G
Sbjct: 57  ALQTLNG 63

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Length = 139

 Score = 37.4 bits (87), Expect = 8e-04
 Identities = 20/98 (20%), Positives = 37/98 (37%), Gaps = 5/98 (5%)

Query: 104 GMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVR 163
           G         +        +++   PD    L V  +P+     ++  +F  +   + V+
Sbjct: 14  GQTAQLQQLQQQQQQHIPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVK 73

Query: 164 LVS-KESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
           +V  +E+R   G      FV F S + A  A+  L G 
Sbjct: 74  IVCDRETRQSRG----YGFVKFQSGSSAQQAIAGLNGF 107

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	235
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.77
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.75
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.74
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.73
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.73
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.73
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.73
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.72
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.72
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.72
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.72
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.72
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.72
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.72
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.72
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.72
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.72
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.72
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.72
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.72
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.71
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.71
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.71
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.71
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.71
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.71
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.71
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.71
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.71
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.7
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.7
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.7
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.7
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.7
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.7
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.7
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.7
2div_A	99	TRNA selenocysteine associated protein; structural	99.7
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.7
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.7
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.7
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.7
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.69
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.69
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.69
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.69
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.69
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.69
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.69
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.69
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.69
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.69
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.69
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.69
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.69
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.68
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.68
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.68
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.68
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.68
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.68
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.68
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.67
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.67
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.67
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.67
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.67
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.67
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.67
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.67
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.67
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.67
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.67
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.67
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.67
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.67
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.66
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.66
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.66
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.66
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.66
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.66
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.66
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.66
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.65
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.65
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.65
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.65
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.65
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.65
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.65
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.65
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.65
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.64
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.64
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.64
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.64
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.64
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.64
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.64
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.63
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.63
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.63
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.63
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.63
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.63
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.63
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.63
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.63
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.63
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.62
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.62
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.62
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.62
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.62
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.62
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.62
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.62
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.61
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.61
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.61
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.61
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.61
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.61
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.61
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.61
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.6
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.6
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.6
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.6
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.6
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.6
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.6
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.59
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.59
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.59
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.59
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.59
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.59
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.59
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.59
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.59
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.58
1x5p_A	97	Negative elongation factor E; structure genomics,	99.58
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.58
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.58
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.57
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.57
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.57
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.57
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.57
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.57
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.57
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.57
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.56
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.56
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.56
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.56
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.55
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.55
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.32
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.55
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.55
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.54
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.54
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.54
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.53
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.52
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.52
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.52
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.52
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.5
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.5
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.49
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.49
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.48
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.47
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.47
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.46
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.45
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.45
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.44
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.43
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.43
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.43
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.43
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.42
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.42
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.41
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.38
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.38
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.37
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.37
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.36
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.36
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.36
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.36
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.36
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.34
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.32
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.3
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.2
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.07
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.06
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.05
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.78
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.71
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.57
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	97.97
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.83
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	97.26
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	97.03
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	96.91
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	96.62
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	96.57
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	96.18
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.17
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	94.93
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	93.96
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	92.64
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	86.43

>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=99.77  E-value=1.4e-18  Score=131.84  Aligned_cols=72  Identities=22%  Similarity=0.384  Sum_probs=64.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +++|||+|||.++|+++|+++|++||.|++|+|+.++.   .|.++|||||+|.+.++|++|++.|||..|....
T Consensus        19 gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~---tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~   90 (99)
T 4fxv_A           19 GTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKV---AGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKT   90 (99)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSS---SCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCC---CCcccccEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            57999999999999999999999999999999999872   1455569999999999999999999999998643

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

Probab=99.75  E-value=9.6e-18  Score=123.92  Aligned_cols=73  Identities=19%  Similarity=0.363  Sum_probs=64.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      +.++|||+|||.++++++|+++|++||.|++|+|+.++ ++...|    ||||+|.+.++|++|++.|||..+.....
T Consensus        15 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g----~afV~f~~~~~A~~A~~~l~g~~~~g~~l   88 (94)
T 2e5h_A           15 SKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKG----VAFILFLDKDSAQNCTRAINNKQLFGRVI   88 (94)
T ss_dssp             CTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTT----CEEEEESCHHHHHHHHHHTTTEEETTEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCccc----EEEEEECCHHHHHHHHHHcCCCeeCCcEE
Confidence            36899999999999999999999999999999999987 333334    99999999999999999999998885433

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

Probab=99.74  E-value=7.8e-18  Score=130.27  Aligned_cols=76  Identities=16%  Similarity=0.101  Sum_probs=66.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      .++|||+|||+++++++|+++|++||.|++|+|+.++.   .|+++|||||+|++.++|++|++.|||+.|......+.
T Consensus         6 ~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~---tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~   81 (110)
T 3s8s_A            6 LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPR---TRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQ   81 (110)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCC---CCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            57999999999999999999999999999999999972   14455699999999999999999999999986444433

>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=99.73  E-value=5.4e-18  Score=131.22  Aligned_cols=70  Identities=19%  Similarity=0.262  Sum_probs=63.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +++|||+|||+++|+++|+++|++||.|++|+|+.++++     ++|||||+|.+.++|++||+.|+|+.|....
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~-----~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~   74 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-----SKGYGFVHFETQEAAERAIEKMNGMLLNDRK   74 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTE-----EEEEEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCC-----CCceEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            578999999999999999999999999999999998743     3449999999999999999999999987643

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

Probab=99.73  E-value=4.8e-17  Score=125.27  Aligned_cols=72  Identities=22%  Similarity=0.348  Sum_probs=64.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++++++|+++|++||.|++|+|+.++ ++.    ++|||||+|.+.++|++|++.|||..|....
T Consensus        39 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~----~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~  111 (118)
T 2khc_A           39 EGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSL----SKCFGFVSFDNPDSAQVAIKAMNGFQVGTKR  111 (118)
T ss_dssp             CSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSC----CCCEEEEEEESSHHHHHHHHHCCCCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCC----cCcEEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            46899999999999999999999999999999999886 333    3349999999999999999999999987543

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

Probab=99.73  E-value=2.6e-17  Score=121.81  Aligned_cols=72  Identities=22%  Similarity=0.281  Sum_probs=64.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++++|||+|||.++|+++|+++|++||.|++|+|+.++ ++.    ++|||||+|.+.++|++|++.|||+.+....
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   76 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGR----SKGYGFITFSDSECARRALEQLNGFELAGRP   76 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCC----CCSEEEEEESCHHHHHHHHHHHTTCCSSSSC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCc----eeeEEEEEECCHHHHHHHHHHhCCCeeCCcE
Confidence            46899999999999999999999999999999999987 333    3449999999999999999999999887533

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.73  E-value=5.5e-17  Score=122.11  Aligned_cols=72  Identities=22%  Similarity=0.305  Sum_probs=64.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      ..++|||+|||.++|+++|+++|++||.|++|+|+.++.+.+ |    ||||+|.+.++|++|++.|||..|.....
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~-g----~afV~f~~~~~a~~A~~~l~g~~~~g~~l   85 (103)
T 2cq3_A           14 TPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK-G----FGFVTFENSADADRAREKLHGTVVEGRKI   85 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTC-C----EEEEEESCHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCc-E----EEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            468999999999999999999999999999999999874433 3    99999999999999999999999876443

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

Probab=99.72  E-value=1.2e-17  Score=121.41  Aligned_cols=70  Identities=23%  Similarity=0.376  Sum_probs=63.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++++|||+|||.++++++|+++|++||.|.+|+|+.++ ++    .++|||||+|.+.++|++|++.|||..+..
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   74 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTN----KCKGYGFVDFDSPSAAQKAVTALKASGVQA   74 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSC----SCCSEEEEEESCHHHHHHHHHHHHHHTCCE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC----CcCcEEEEEECCHHHHHHHHHHhcCCeEee
Confidence            46899999999999999999999999999999999986 33    334499999999999999999999998875

>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=99.72  E-value=1.5e-17  Score=121.00  Aligned_cols=73  Identities=23%  Similarity=0.284  Sum_probs=64.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      +.++|||+|||.++++++|+++|++||.|.+|+++.++ +    |.++|||||+|.+.++|++|++.|||..+.....
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~----~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l   78 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMAT----GKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI   78 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT----CCEEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCC----CccceEEEEEECCHHHHHHHHHHcCCCEECCeEE
Confidence            36899999999999999999999999999999999986 3    3455699999999999999999999998876433

>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=99.72  E-value=4.1e-17  Score=124.17  Aligned_cols=70  Identities=19%  Similarity=0.377  Sum_probs=61.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+|+.++.  .+|    ||||+|.+.++|++|++.|||..|....
T Consensus        21 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~--~~g----~afV~f~~~~~A~~A~~~l~g~~~~g~~   90 (109)
T 1x4a_A           21 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRG--GPP----FAFVEFEDPRDAEDAVYGRDGYDYDGYR   90 (109)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSS--SSC----CEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC--CCc----EEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence            468999999999999999999999999999999976541  223    9999999999999999999999887543

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=99.72  E-value=2.9e-17  Score=123.82  Aligned_cols=80  Identities=29%  Similarity=0.381  Sum_probs=68.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee--eec
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC--LSN  208 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~--r~~  208 (235)
                      ++++|||+|||.++++++|+++|++||.|++|+|+.+++    |.++|||||+|.+.++|++|++.|||..+...  +.+
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            368999999999999999999999999999999999874    34556999999999999999999999988763  444


Q ss_pred             eEEEEe
Q 026648          209 LVVFYQ  214 (235)
Q Consensus       209 ~~~~~~  214 (235)
                      .+-+++
T Consensus        90 ~V~~a~   95 (105)
T 2dnh_A           90 VVKFAD   95 (105)
T ss_dssp             EEEESC
T ss_pred             EEEECc
Confidence            444444

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

Probab=99.72  E-value=1.7e-17  Score=122.56  Aligned_cols=73  Identities=21%  Similarity=0.209  Sum_probs=64.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +++++|||+|||.++++++|+++|++||.|++|+|+.++.   .|.++|||||+|.+.++|++|++.|||..+...
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~---~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   85 (95)
T 2cqc_A           13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQ---SRRSRGFAFVYFENVDDAKEAKERANGMELDGR   85 (95)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSS---SSSEEEEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCC---CCCcccEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            3468999999999999999999999999999999999872   134556999999999999999999999988753

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

Probab=99.72  E-value=2.9e-17  Score=123.64  Aligned_cols=72  Identities=22%  Similarity=0.392  Sum_probs=65.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+|+.++ +    |.++|||||+|.+.++|++|++.|||..|....
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~----~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   86 (103)
T 2cq0_A           14 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTT----GQSKGFAFISFHRREDAARAIAGVSGFGYDHLI   86 (103)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSS----CSEEEEEEEEESSHHHHHHHHHHTTTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCC----CceeeEEEEEECCHHHHHHHHHHcCCCeeCCcE
Confidence            46899999999999999999999999999999999986 3    345569999999999999999999999988543

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

Probab=99.72  E-value=3.8e-17  Score=122.37  Aligned_cols=72  Identities=26%  Similarity=0.530  Sum_probs=64.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+|+.+++    |.++|||||+|.+.++|++|++.|||..+....
T Consensus        16 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   87 (100)
T 2do4_A           16 EKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRA----GKPKGLAYVEYENESQASQAVMKMDGMTIKENI   87 (100)
T ss_dssp             CCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT----SCEEEEEEEEESSHHHHHHHHHHHTTEESSSCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCC----CCEEeEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            368999999999999999999999999999999999873    345559999999999999999999998887533

>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=99.72  E-value=1e-17  Score=124.03  Aligned_cols=71  Identities=23%  Similarity=0.283  Sum_probs=64.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +.++|||+|||.++++++|+++|++||.|++|+|+.++.    |.+++||||+|.+.++|++|++.|||..+...
T Consensus        15 ~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   85 (95)
T 2ywk_A           15 ADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE----GKPKSFGFVCFKHPESVSYAIALLNGIRLYGR   85 (95)
T ss_dssp             GGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT----SCEEEEEEEEESSTHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCC----CCCceEEEEEECCHHHHHHHHHHhCCCEECCC
Confidence            468999999999999999999999999999999999874    34556999999999999999999999998753

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

Probab=99.72  E-value=3e-17  Score=120.81  Aligned_cols=73  Identities=19%  Similarity=0.175  Sum_probs=64.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      +.++|||+|||.++++++|+++|++||.|++|+|+.+.     |.+++||||+|.+.++|++|++.|||..+......
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~-----g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~   79 (92)
T 2dgv_A            7 GACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMEN-----GKSKGCGVVKFESPEVAERACRMMNGMKLSGREID   79 (92)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESS-----SCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccC-----CCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEE
Confidence            46899999999999999999999999999999999853     34455999999999999999999999998764333

>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=99.72  E-value=3.3e-17  Score=123.56  Aligned_cols=72  Identities=17%  Similarity=0.155  Sum_probs=64.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ++.++|||+|||.++|+++|+++|++||.|++|+|+.++ ++    .++|||||+|.+.++|++|++.|||..|...
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   85 (105)
T 1x5u_A           13 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTG----QHQGYGFVEFLSEEDADYAIKIMDMIKLYGK   85 (105)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSC----SBCSCEEEEESSHHHHHHHHHHSSSCBCSSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC----cCCcEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            346899999999999999999999999999999999987 43    3344999999999999999999999988753

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

Probab=99.72  E-value=2.2e-17  Score=124.35  Aligned_cols=72  Identities=21%  Similarity=0.213  Sum_probs=64.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+|+.++ ++.    ++|||||+|.+.++|++|++.|||..|....
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~----~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   84 (103)
T 2dnm_A           12 GMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKA----PRGFAFVRFHDRRDAQDAEAAMDGAELDGRE   84 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCS----BCSCEEEEESSSSHHHHHHHHHSSCCBTTBC
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCC----CCeEEEEEECCHHHHHHHHHHcCCCEECCcE
Confidence            46899999999999999999999999999999999887 333    3449999999999999999999999987543

>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=99.72  E-value=2.5e-17  Score=119.34  Aligned_cols=72  Identities=19%  Similarity=0.314  Sum_probs=63.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++++++|+++|++||.|.+|+++.++ ++    .++|||||+|.+.++|++|++.|||..+....
T Consensus         6 ~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   78 (85)
T 3mdf_A            6 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE----KHRGFAFVEFELAEDAAAAIDNMNESELFGRT   78 (85)
T ss_dssp             CSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTT----EECSEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCC----ccccEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            36899999999999999999999999999999999885 43    33349999999999999999999999987543

>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=99.72  E-value=4.8e-17  Score=122.44  Aligned_cols=71  Identities=23%  Similarity=0.413  Sum_probs=64.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..++|||+|||.++++++|+++|++||.|++|+|+.++...+ |    ||||+|.+.++|++|++.|||..|....
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-g----~afV~f~~~~~a~~A~~~l~g~~~~g~~   84 (103)
T 2cqi_A           14 QPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSND-P----YCFVEFYEHRDAAAALAAMNGRKILGKE   84 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSC-C----EEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCC-C----EEEEEECCHHHHHHHHHHhCCCCcCCCe
Confidence            468999999999999999999999999999999999874433 3    9999999999999999999999988533

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

Probab=99.71  E-value=2.7e-17  Score=123.22  Aligned_cols=76  Identities=24%  Similarity=0.286  Sum_probs=66.4

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEE--------EEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhc
Q 026648          127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKE--------VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (235)
Q Consensus       127 ~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~--------vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln  198 (235)
                      .++.+.++|||+|||.++|+++|+++|++||.|.+        |+|+.++.   .|+++|||||+|.+.++|++|++.||
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 HSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRE---TGKLKGEATVSFDDPPSAKAAIDWFD   84 (99)
T ss_dssp             CSCCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTT---TCSEEEEEEEEBSSHHHHHHHHHHHT
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCC---CCCeeeEEEEEECCHHHHHHHHHHhC
Confidence            34455799999999999999999999999999999        99999862   13455699999999999999999999


Q ss_pred             CceEeee
Q 026648          199 GQSNIIC  205 (235)
Q Consensus       199 G~~i~~~  205 (235)
                      |..+...
T Consensus        85 g~~~~g~   91 (99)
T 2la6_A           85 GKEFSGN   91 (99)
T ss_dssp             TCBSSSS
T ss_pred             CCEeCCc
Confidence            9988753

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

Probab=99.71  E-value=5.8e-17  Score=123.87  Aligned_cols=71  Identities=18%  Similarity=0.204  Sum_probs=64.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ++++|||+|||.++++++|+++|++||.|++|+|+.+++    |.+++||||+|.+.++|++|++.|||+.|...
T Consensus        14 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   84 (114)
T 2do0_A           14 LGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD----GKSRGIGTVTFEQSIEAVQAISMFNGQLLFDR   84 (114)
T ss_dssp             CCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT----CSEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC----CCeeeEEEEEECCHHHHHHHHHHhCCCEeCCC
Confidence            368999999999999999999999999999999999874    34556999999999999999999999998753

>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=99.71  E-value=3.3e-17  Score=125.86  Aligned_cols=72  Identities=18%  Similarity=0.360  Sum_probs=65.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++++++|+++|++||.|++|+|+.++ +    |.++|||||+|.+.++|++|++.|||+.|....
T Consensus        24 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   96 (115)
T 2cpz_A           24 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQT----NLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKR   96 (115)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSS----CSEEEEEEEECSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCC----CCcCccEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            46899999999999999999999999999999999987 3    445569999999999999999999999988543

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

Probab=99.71  E-value=4.3e-17  Score=122.70  Aligned_cols=71  Identities=21%  Similarity=0.337  Sum_probs=63.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .+.++|||+|||.++|+++|+++|++||.|++|+|+.+ +    |.+++||||+|.+.++|++|++.|||..+...
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~----g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   83 (103)
T 2d9p_A           13 YQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME-G----GRSKGFGFVCFSSPEEATKAVTEMNGRIVATK   83 (103)
T ss_dssp             SSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEEC-S----SSEEEEEEEEESSHHHHHHHHHHHTTCBSSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC-C----CCcCEEEEEEECCHHHHHHHHHHhCCCEeCCc
Confidence            34689999999999999999999999999999999988 3    34555999999999999999999999988653

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.71  E-value=6.5e-17  Score=123.86  Aligned_cols=64  Identities=17%  Similarity=0.286  Sum_probs=57.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcC--ceEe
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQG--QSNI  203 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG--~~i~  203 (235)
                      ++++|||+|||+++|+++|+++|++||.|++|+|+.++     |    ||||+|++.++|++|++.|++  ..+.
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~k-----g----~aFVef~~~~~A~~Ai~~l~~~~~~~~   79 (101)
T 2cq1_A           14 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGK-----N----QAFLELATEEAAITMVNYYSAVTPHLR   79 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHHHSCCEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECCC-----C----EEEEEECCHHHHHHHHHHhccCCceEC
Confidence            46899999999999999999999999999999998764     5    999999999999999998864  4454

>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=99.71  E-value=3.7e-17  Score=123.65  Aligned_cols=76  Identities=24%  Similarity=0.239  Sum_probs=66.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +++++|||+|||.++|+++|+++|++||.|++|+|+.+++    |+++|||||+|.+.++|++|++.|||..|......+
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            3468999999999999999999999999999999999874    344559999999999999999999999987644333

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

Probab=99.71  E-value=3.7e-17  Score=125.92  Aligned_cols=72  Identities=18%  Similarity=0.211  Sum_probs=62.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      ++++|||+|||+++|+++|+++|++||.|++|+|++.|     |    ||||+|++.++|++|++.|+|..+......+.
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            47899999999999999999999999999999998654     5    99999999999999999999987654444443


Q ss_pred             E
Q 026648          211 V  211 (235)
Q Consensus       211 ~  211 (235)
                      +
T Consensus        91 V   91 (100)
T 3r27_A           91 V   91 (100)
T ss_dssp             E
T ss_pred             E
Confidence            3

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

Probab=99.71  E-value=3.4e-17  Score=122.87  Aligned_cols=76  Identities=18%  Similarity=0.290  Sum_probs=65.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+|+.++ ++.    ++|||||+|.+.++|++|++.|||..|......+
T Consensus        11 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~----~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V   86 (102)
T 2cqb_A           11 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEK----HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRV   86 (102)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCC----CSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCC----cceEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            36899999999999999999999999999999999886 333    3349999999999999999999999988544333


Q ss_pred             E
Q 026648          210 V  210 (235)
Q Consensus       210 ~  210 (235)
                      .
T Consensus        87 ~   87 (102)
T 2cqb_A           87 N   87 (102)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.71  E-value=5.2e-17  Score=121.23  Aligned_cols=72  Identities=26%  Similarity=0.459  Sum_probs=64.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++++|||+|||.++|+++|+++|++||.|++|+|+.++ ++..+|    ||||+|.+.++|++|++.|||..+....
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g----~afV~f~~~~~a~~A~~~l~g~~~~g~~   79 (99)
T 1whw_A            7 GSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKG----FAFVTFMFPEHAVKAYAEVDGQVFQGRM   79 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCS----EEEEEESSHHHHHHHHHHTTTEESSSCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCe----EEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            36899999999999999999999999999999999987 443334    9999999999999999999999887533

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B

Probab=99.70  E-value=5.7e-17  Score=120.74  Aligned_cols=78  Identities=12%  Similarity=0.158  Sum_probs=66.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      +++|||+|||.++++++|+++|++||.|.+|+|+.++ ++    .++|||||+|.+.++|++|++.|||..+.. +.+.+
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g----~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g-~~l~V   76 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTG----RSKGYAFIEFRDLESSASAVRNLNGYQLGS-RFLKC   76 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTC----CBCSEEEEEESSHHHHHHHHHHHTTCEETT-EECEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCC----ccceEEEEEECCHHHHHHHHHHhCCCeECC-eEEEE
Confidence            5899999999999999999999999999999999886 33    334499999999999999999999999886 33334


Q ss_pred             EEEe
Q 026648          211 VFYQ  214 (235)
Q Consensus       211 ~~~~  214 (235)
                      .++.
T Consensus        77 ~~a~   80 (96)
T 2x1f_A           77 GYSS   80 (96)
T ss_dssp             EECS
T ss_pred             EEcC
Confidence            4443

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

Probab=99.70  E-value=5.6e-17  Score=124.34  Aligned_cols=75  Identities=21%  Similarity=0.270  Sum_probs=66.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +.++|||+|||.++++++|+++|++||.|++|+|+.++ +    |.++|||||+|.+.++|++|++.|||..|......+
T Consensus        14 ~~~~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           14 NHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMAT----GKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRT   89 (115)
T ss_dssp             TCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT----CCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCC----CCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            46899999999999999999999999999999999986 3    345569999999999999999999999988644333

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

Probab=99.70  E-value=4.1e-17  Score=122.39  Aligned_cols=77  Identities=25%  Similarity=0.283  Sum_probs=66.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      .++|||+|||.++|+++|+++|++||.|++|+|+.++ ++    .++|||||+|.+.++|++|++.|||..|......+.
T Consensus        12 ~~~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           12 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQ----RSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVD   87 (102)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSC----SCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCC----CcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            6899999999999999999999999999999999987 33    334499999999999999999999999876444444


Q ss_pred             EE
Q 026648          211 VF  212 (235)
Q Consensus       211 ~~  212 (235)
                      +.
T Consensus        88 ~a   89 (102)
T 1x5s_A           88 QA   89 (102)
T ss_dssp             EE
T ss_pred             EC
Confidence            43

>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=99.70  E-value=3e-17  Score=123.99  Aligned_cols=68  Identities=18%  Similarity=0.320  Sum_probs=61.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceE
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSN  202 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i  202 (235)
                      ..++|||+|||.++|+++|+++|++||.|++|+|+.++ ++.    ++|||||+|.+.++|++|++.|||..+
T Consensus        12 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~----~~g~afV~f~~~~~A~~A~~~l~g~~~   80 (106)
T 2dgp_A           12 DAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGM----HKGCAFLTYCERESALKAQSALHEQKT   80 (106)
T ss_dssp             TCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCS----CCSEEEEEESSHHHHHHHHHHHTTTCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCC----cceEEEEEECCHHHHHHHHHHhcCCcc
Confidence            46899999999999999999999999999999999987 333    334999999999999999999999986

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

Probab=99.70  E-value=9.6e-17  Score=119.95  Aligned_cols=70  Identities=21%  Similarity=0.409  Sum_probs=62.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +.++|||+|||.++++++|+++|++||.|++|+|+.++ ++.    ++|||||+|.+.++|++|++ |+|..|...
T Consensus         9 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~----~~g~afV~f~~~~~a~~A~~-~~~~~~~g~   79 (99)
T 2dgs_A            9 KSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQR----PRGFGFITFEDEQSVDQAVN-MHFHDIMGK   79 (99)
T ss_dssp             SCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCS----CCSEEEEEESSHHHHHHHHH-HCCCBSSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCC----CCceEEEEECCHHHHHHHHH-hCCCEECCe
Confidence            36899999999999999999999999999999999987 333    33499999999999999999 999988753

>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=99.70  E-value=7.1e-17  Score=122.65  Aligned_cols=73  Identities=21%  Similarity=0.286  Sum_probs=64.2

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhc------CceE
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQ------GQSN  202 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln------G~~i  202 (235)
                      .+.++|||+|||+++|+++|+++|++||.|++|+|+.++ ++.    ++|||||+|.+.++|++|++.||      |..|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~----~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~   88 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEH----SKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKL   88 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCC----BCSEEEEEESSHHHHHHHHHHHCTTTTTCCEES
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCC----CccEEEEEECCHHHHHHHHHHhccccccCCcEE
Confidence            346899999999999999999999999999999999987 333    33499999999999999999999      8888


Q ss_pred             eeee
Q 026648          203 IICL  206 (235)
Q Consensus       203 ~~~r  206 (235)
                      ....
T Consensus        89 ~g~~   92 (111)
T 1x4h_A           89 DGRQ   92 (111)
T ss_dssp             SSCE
T ss_pred             cCEE
Confidence            7533

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

Probab=99.70  E-value=8.5e-17  Score=121.46  Aligned_cols=71  Identities=28%  Similarity=0.422  Sum_probs=63.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeC-C-CCCCCCCCceEEEEEecCHHHHHHHHHHh-cCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK-E-SRHPGGDPLILCFVDFVSPAHAATAMDAL-QGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~d-k-~~~~gG~~~~faFVeF~s~~~A~~Ai~~L-nG~~i~~~  205 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+|+.+ + ++    .++|||||+|.+.++|++|++.| ||..|...
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~   87 (107)
T 2cph_A           14 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTG----AHRGFGFVDFITKQDAKKAFNALCHSTHLYGR   87 (107)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSC----SSCSEEEEEESSHHHHHHHHHHHHTCCBSSSC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCC----CcCceEEEEECCHHHHHHHHHHhccCCeECCC
Confidence            4689999999999999999999999999999999988 4 33    33349999999999999999999 89988853

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

Probab=99.70  E-value=3.8e-17  Score=121.78  Aligned_cols=74  Identities=22%  Similarity=0.283  Sum_probs=64.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +++|||+|||.++|+++|+++|++||.|++|+|+.++.....|.+++||||+|.+.++|++|++.|||..|...
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   78 (98)
T 2cpf_A            5 SSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGH   78 (98)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCe
Confidence            58999999999999999999999999999999998863110125566999999999999999999999998853

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

Probab=99.70  E-value=3e-17  Score=122.53  Aligned_cols=72  Identities=18%  Similarity=0.333  Sum_probs=65.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeE-EEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYK-EVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~-~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++++|||+|||.++++++|+++|++||.|. +|+|+.++ +    |.++|||||+|.+.++|++|++.|||..+....
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   81 (99)
T 2div_A            8 MAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLT----GIPAGYCFVEFADLATAEKCLHKINGKPLPGAT   81 (99)
T ss_dssp             SSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSS----CCEEEEEEEECSCHHHHHHHHHTTTTSEESSCS
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCC----CCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCC
Confidence            468999999999999999999999999999 99999987 3    345559999999999999999999999998755

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

Probab=99.70  E-value=8.1e-18  Score=125.47  Aligned_cols=69  Identities=22%  Similarity=0.282  Sum_probs=59.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCC-CeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCc-eEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQ-SNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG-~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~-~i~~  204 (235)
                      +++|||+|||+++||++|+++|++|| .|++|+|+.++ ++..    +|||||+|.+.++|++|++.|++. .+..
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~----rg~aFV~F~~~~~A~~Ai~~~~~~~~~~g   72 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQS----RGFAFVEFSHLQDATRWMEANQHSLNILG   72 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCC----SSEEEEECSSHHHHHHHHHTTTTEEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCc----CceEEEEecCHHHHHHHHHhcCCCeEECC
Confidence            47999999999999999999999999 89999999987 4333    349999999999999999988654 4543

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.70  E-value=6.9e-17  Score=116.47  Aligned_cols=71  Identities=27%  Similarity=0.320  Sum_probs=63.5

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .+|||+|||.++++++|+++|++||.|.+|+++.++.   .|.++|||||+|.+.++|++|++.|||..+....
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~---~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~   72 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQ---TGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRP   72 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTT---TCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCC---CCCccceEEEEECCHHHHHHHHHHhcCCeeCCcE
Confidence            6899999999999999999999999999999998861   1345569999999999999999999999987543

>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=99.70  E-value=9e-17  Score=121.31  Aligned_cols=75  Identities=21%  Similarity=0.253  Sum_probs=63.5

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       128 ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +..+.++|||+|||.++|+++|+++|++|| |++|+|+.++..  .|.++|||||+|.+.++|++|+ .|||..|....
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~--~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~   85 (104)
T 1wi8_A           11 PKSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSN--PERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKR   85 (104)
T ss_dssp             CSSSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSC--TTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEE
T ss_pred             CCCCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCC--CCCcCeEEEEEECCHHHHHHHH-hcCCCEeCCcE
Confidence            344568999999999999999999999999 999999988721  0233449999999999999999 99999987543

>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=99.70  E-value=4.4e-17  Score=125.42  Aligned_cols=75  Identities=13%  Similarity=0.206  Sum_probs=63.0

Q ss_pred             CCCeEEEcCCCC-CCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee-eeec
Q 026648          131 ASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII-CLSN  208 (235)
Q Consensus       131 ~~~tLfVgNLP~-~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~-~r~~  208 (235)
                      ++++|||+|||+ ++|++||+++|++||.|++|+|+.++     |    ||||+|++.++|++|++.||+..+.. .+.+
T Consensus        14 p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~k-----g----~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l   84 (102)
T 1x4d_A           14 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI-----N----EAFIEMATTEDAQAAVDYYTTTPALVFGKPV   84 (102)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS-----S----CEEEEESSHHHHHHHHHHHHHSCCEETTEEC
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcCC-----C----EEEEEECCHHHHHHHHHHHcCCCceECCcEE
Confidence            478999999999 99999999999999999999999775     4    99999999999999999999865332 2333


Q ss_pred             eEEEEe
Q 026648          209 LVVFYQ  214 (235)
Q Consensus       209 ~~~~~~  214 (235)
                      .+-++.
T Consensus        85 ~V~~a~   90 (102)
T 1x4d_A           85 RVHLSQ   90 (102)
T ss_dssp             EEEEEC
T ss_pred             EEEECC
Confidence            344444

>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=99.69  E-value=8e-17  Score=123.69  Aligned_cols=78  Identities=18%  Similarity=0.198  Sum_probs=65.9

Q ss_pred             CCeEEEcCCCCCCCHHHHH---HhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          132 SSTLFVEGLPSDCSRREVA---HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~---~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      .++|||+|||+++++++|+   ++|++||.|++|+|+.++.....+.++|||||+|.+.++|++|++.|||+.|......
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            5799999999999999999   9999999999999998873111124556999999999999999999999998754333


Q ss_pred             e
Q 026648          209 L  209 (235)
Q Consensus       209 ~  209 (235)
                      +
T Consensus        95 V   95 (111)
T 2cpi_A           95 A   95 (111)
T ss_dssp             E
T ss_pred             E
Confidence            3

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

Probab=99.69  E-value=2.1e-17  Score=125.16  Aligned_cols=66  Identities=15%  Similarity=0.333  Sum_probs=58.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCC--eEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCce
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVG--YKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQS  201 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~--I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~  201 (235)
                      -+||||+|||+++|+++|+++|++||.  +.+|+|++++ ++    +++|||||+|.+.++|++|++.|||..
T Consensus         9 m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg----~srG~aFV~f~~~~~A~~Ai~~lng~~   77 (95)
T 2lkz_A            9 MDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQ----QNRGFAFVQLSSAMDASQLLQILQSLH   77 (95)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSS----SCSSEEEEECSSSHHHHHHHHHHHSSS
T ss_pred             cCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCC----CCceEeEEEECCHHHHHHHHHHhcCCC
Confidence            479999999999999999999999995  6789999987 43    344499999999999999999999974

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

Probab=99.69  E-value=9.3e-17  Score=121.05  Aligned_cols=75  Identities=23%  Similarity=0.359  Sum_probs=64.5

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       127 ~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++.+.++|||+|||.++++++|+++|++|| |++|+|+.++.   .|+++|||||+|.+.++|++|+ .|||..|....
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-IRSVRLVRDKD---TDKFKGFCYVEFDEVDSLKEAL-TYDGALLGDRS   84 (103)
T ss_dssp             CCSSSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSS---SCSEEEEEEEEESSHHHHHHHG-GGTTCEETTEE
T ss_pred             CCCCCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCC---CCccceEEEEEECCHHHHHHHH-hhCCCeECCeE
Confidence            3444578999999999999999999999996 99999999872   1345569999999999999999 89999988543

>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=99.69  E-value=8.8e-17  Score=123.24  Aligned_cols=76  Identities=21%  Similarity=0.365  Sum_probs=65.4

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       128 ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      |++++++|||+|||.++|+++|+++|++||.|.+|+|+.+..  ..|    ||||+|.+.++|++|++.|||..+.....
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 PPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPE--TRG----TAYVVYEDIFDAKNAVDHLSGFNVSNRYL   77 (115)
T ss_dssp             CTTCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTT--TTT----CEEEEESSHHHHHHHHHHHTTCBSSSCBC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCC--CCc----EEEEEECCHHHHHHHHHHcCCCEECCeEE
Confidence            455678999999999999999999999999999999997642  124    99999999999999999999999875433


Q ss_pred             ce
Q 026648          208 NL  209 (235)
Q Consensus       208 ~~  209 (235)
                      .+
T Consensus        78 ~v   79 (115)
T 3lqv_A           78 VV   79 (115)
T ss_dssp             EE
T ss_pred             EE
Confidence            33

>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=99.69  E-value=8.3e-17  Score=127.61  Aligned_cols=71  Identities=24%  Similarity=0.263  Sum_probs=63.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +++++|||+|||.++|+++|+++|++||.|++|+|+.++ ++..    +|||||+|.+.++|++|++.|||..|..
T Consensus        44 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~----~G~afV~F~~~~~A~~Ai~~lng~~i~g  115 (129)
T 2kxn_B           44 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRS----RGFAFVYFENVDDAKEAKERANGMELDG  115 (129)
T ss_dssp             CCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCC----CCEEEEEESCHHHHHHHHHHHTTCCSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcc----ceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            446899999999999999999999999999999999987 3333    3499999999999999999999998875

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.69  E-value=1.3e-16  Score=122.74  Aligned_cols=65  Identities=15%  Similarity=0.162  Sum_probs=58.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++++|||+|||+++++++|+++|++||.|++|+|+.++     |    ||||+|++.++|++|++.|++..+.+
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~k-----g----~aFVef~~~~~A~~Ai~~l~~~~~~i   78 (104)
T 1wex_A           14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFK-----R----QALVEFENIDSAKECVTFAADVPVYI   78 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHHHSCCBS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECCC-----C----EEEEEECCHHHHHHHHHHhccCCceE
Confidence            36899999999999999999999999999999998764     5    99999999999999999998765433

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

Probab=99.69  E-value=1e-16  Score=122.59  Aligned_cols=71  Identities=18%  Similarity=0.288  Sum_probs=63.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeE--------EEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCce
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYK--------EVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQS  201 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~--------~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~  201 (235)
                      ..++|||+|||.++|+++|+++|++||.|+        .|+|+.++ ++.    ++|||||+|.+.++|++|++.|||+.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~----~~g~afV~f~~~~~A~~Ai~~l~g~~   89 (113)
T 2cpe_A           14 DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGK----PKGDATVSYEDPPTAKAAVEWFDGKD   89 (113)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCS----BCSEEEEEBSSHHHHHHHHHHHTTCE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCC----eeeEEEEEECCHHHHHHHHHHcCCCc
Confidence            468999999999999999999999999999        69999986 433    34499999999999999999999999


Q ss_pred             Eeee
Q 026648          202 NIIC  205 (235)
Q Consensus       202 i~~~  205 (235)
                      |...
T Consensus        90 ~~g~   93 (113)
T 2cpe_A           90 FQGS   93 (113)
T ss_dssp             ETTE
T ss_pred             cCCC
Confidence            8753

>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=99.69  E-value=8.3e-17  Score=124.98  Aligned_cols=75  Identities=23%  Similarity=0.340  Sum_probs=65.7

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      +..++|||+|||.++|+++|+++|++||.|++|+|+.++++.    ++|||||+|.+.++|++|++.|||..|......
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~----~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~   79 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSK----SRGFAFITFENPADAKNAAKDMNGKSLHGKAIK   79 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTT----CCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCC----cccEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            346899999999999999999999999999999999987433    334999999999999999999999998764333

>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=99.69  E-value=1.8e-16  Score=121.02  Aligned_cols=64  Identities=19%  Similarity=0.223  Sum_probs=60.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..++|||+|||+++|+++|+++|++||.|++|+|+.+      |    ||||+|.+.++|++||+.|||+.|..
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~------g----~afV~f~~~~~a~~Ai~~l~g~~~~g   77 (108)
T 1x4c_A           14 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD------G----TGVVEFVRKEDMTYAVRKLDNTKFRS   77 (108)
T ss_dssp             CCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT------T----EEEEEESSHHHHHHHHHHSSSEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC------C----EEEEEECCHHHHHHHHHHHCcCCccC
Confidence            4689999999999999999999999999999999987      4    99999999999999999999999885

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

Probab=99.69  E-value=1.5e-17  Score=125.76  Aligned_cols=77  Identities=13%  Similarity=0.161  Sum_probs=66.5

Q ss_pred             CCeEEEcCCCC------CCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPS------DCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~------~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +++|||+|||.      ++++++|+++|++||.|.+|+|+.++ ++.    ++|||||+|.+.++|++|++.|||+.+..
T Consensus         6 ~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~----~kG~afV~f~~~~~A~~Ai~~lng~~~~g   81 (100)
T 3ns6_A            6 DQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGK----TKGFLFVECGSMNDAKKIIKSFHGKRLDL   81 (100)
T ss_dssp             GGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTE----ECSEEEEEESSHHHHHHHHHHHTTCBSSS
T ss_pred             CcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCc----cceEEEEEECCHHHHHHHHHHhCCcccCC
Confidence            57999999999      99999999999999999999999998 333    34499999999999999999999999986


Q ss_pred             eeeceEEE
Q 026648          205 CLSNLVVF  212 (235)
Q Consensus       205 ~r~~~~~~  212 (235)
                      .+...+..
T Consensus        82 ~r~l~V~~   89 (100)
T 3ns6_A           82 KHRLFLYT   89 (100)
T ss_dssp             SCBCEEEE
T ss_pred             CeEEEEEE
Confidence            34433333

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

Probab=99.69  E-value=4.8e-16  Score=120.98  Aligned_cols=79  Identities=20%  Similarity=0.198  Sum_probs=67.5

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +++++|||+|||.++++++|+++|++||.|++|+|+.++++..    +|||||+|.+.++|++|++.|||..+......+
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 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRS----LGTADVHFERRADALKAMKQYKGVPLDGRPMDI  108 (124)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSSSSC----CSEEEEEESSHHHHHHHHHHHTTEESSSCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCE----eeEEEEEECCHHHHHHHHHHcCCCEECCcEEEE
Confidence            4578999999999999999999999999999999999874333    349999999999999999999999887644444


Q ss_pred             EEE
Q 026648          210 VVF  212 (235)
Q Consensus       210 ~~~  212 (235)
                      .++
T Consensus       109 ~~a  111 (124)
T 2kt5_A          109 QLV  111 (124)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            443

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

Probab=99.69  E-value=5.9e-17  Score=120.07  Aligned_cols=71  Identities=18%  Similarity=0.275  Sum_probs=63.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEE-EEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEV-RLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~v-rl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +++|||+|||.++|+++|+++|++||.|.+| +|+.++ ++.    ++|||||+|.+.++|++|++.|||..+....
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~----~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   77 (96)
T 1x5t_A            5 SSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGN----SKGYAFINFASFDASDAAIEAMNGQYLCNRP   77 (96)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCS----CCSEEEEEBSSHHHHHHHHHTTTTCEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCC----cCeEEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            6899999999999999999999999999999 999985 433    3349999999999999999999999987533

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

Probab=99.69  E-value=4.7e-17  Score=126.30  Aligned_cols=65  Identities=17%  Similarity=0.234  Sum_probs=58.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcC--ceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQG--QSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG--~~i~~  204 (235)
                      ++++|||+|||+++||++|+++|++||.|++|+|+.++     |    ||||+|++.++|++|++.|++  ..|..
T Consensus        15 ~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~k-----G----faFVeF~~~~~A~~Ai~~l~~~~~~l~G   81 (105)
T 1sjq_A           15 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGK-----N----QAFIEMNTEEAANTMVNYYTSVTPVLRG   81 (105)
T ss_dssp             CCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHTTSCCEETT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCC-----C----EEEEEECCHHHHHHHHHHhccCCceECC
Confidence            36899999999999999999999999999999999874     5    999999999999999999875  45554

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

Probab=99.68  E-value=1.5e-16  Score=125.08  Aligned_cols=71  Identities=20%  Similarity=0.325  Sum_probs=63.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+|+.++ ++..    +|||||+|.+.++|++|++.|||..|...
T Consensus        62 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~----~g~afV~f~~~~~a~~A~~~l~g~~~~g~  133 (140)
T 2ku7_A           62 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKH----RGFAFVEFELAEDAAAAIDNMNESELFGR  133 (140)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCC----CSEEEEEESCHHHHHHHHHHSTEEEETTE
T ss_pred             CCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCc----CcEEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            36899999999999999999999999999999999986 4333    34999999999999999999999988753

>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=99.68  E-value=1.2e-16  Score=121.68  Aligned_cols=72  Identities=18%  Similarity=0.223  Sum_probs=64.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++++|||+|||.++|+++|+++|++||.|++|+|+.++ ++    .++|||||+|.+.++|++|++.|||..|....
T Consensus        25 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   97 (110)
T 1oo0_B           25 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTG----FSKGYALVEYETHKQALAAKEALNGAEIMGQT   97 (110)
T ss_dssp             TBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTS----SBCSEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC----CcceEEEEEECCHHHHHHHHHHcCCCEECCcE
Confidence            46899999999999999999999999999999999886 43    33449999999999999999999999987543

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

Probab=99.68  E-value=2.2e-16  Score=121.34  Aligned_cols=76  Identities=18%  Similarity=0.204  Sum_probs=64.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ..++|||+|||.++|+++|+++|++||.|++|+|+.++ ++..+    |||||+|.+.++|++|++.|++ .|......+
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~----g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V   90 (116)
T 2cqd_A           16 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSR----GYGFVTMADRAAAERACKDPNP-IIDGRKANV   90 (116)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCC----SEEEEEESSHHHHHHHHTCSSC-EETTEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccc----eEEEEEECCHHHHHHHHHhCCC-cCCCEEEEE
Confidence            36899999999999999999999999999999999987 33333    4999999999999999999998 666533333


Q ss_pred             EE
Q 026648          210 VV  211 (235)
Q Consensus       210 ~~  211 (235)
                      .+
T Consensus        91 ~~   92 (116)
T 2cqd_A           91 NL   92 (116)
T ss_dssp             EE
T ss_pred             EE
Confidence            33

>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=99.68  E-value=4.1e-16  Score=119.34  Aligned_cols=70  Identities=17%  Similarity=0.356  Sum_probs=63.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..++|||+|||.++|+++|+++|++||.|.+|+|+.+++    |.++|||||+|.+.++|++|++.|||..|..
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~   93 (114)
T 1x5o_A           24 DPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSS----GTSRGVGFARMESTEKCEAVIGHFNGKFIKT   93 (114)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSS----SCEEEEEEEEESCHHHHHHHHHHHBTCCCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCC----CCcceEEEEEECCHHHHHHHHHHhCCCEEcC
Confidence            358999999999999999999999999999999999873    3455599999999999999999999999864

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}

Probab=99.68  E-value=9.5e-17  Score=116.74  Aligned_cols=77  Identities=13%  Similarity=0.195  Sum_probs=65.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      .++|||+|||.++|+++|+++|++||.|.+|+|+.++...  +.++|||||+|.+.++|++|++.|||..+......+.
T Consensus         4 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~--~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   80 (88)
T 4a8x_A            4 PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHP--HLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITAT   80 (88)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEE--EEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCC--CCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEE
Confidence            4799999999999999999999999999999999887210  1133399999999999999999999999886444433

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

Probab=99.68  E-value=8.9e-17  Score=121.36  Aligned_cols=72  Identities=21%  Similarity=0.299  Sum_probs=64.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ++++|||+|||.++++++|+++|++||.|++|+|+.++.   .|.++|||||+|.+.++|++|++.|||..+...
T Consensus        22 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~---~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   93 (106)
T 1p27_B           22 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRR---TGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQ   93 (106)
T ss_dssp             TBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT---TSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCC---CCceeeEEEEEECCHHHHHHHHHHhcCCEECCc
Confidence            368999999999999999999999999999999999872   134556999999999999999999999988753

>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=99.68  E-value=1.1e-16  Score=116.82  Aligned_cols=69  Identities=19%  Similarity=0.302  Sum_probs=59.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      +.++|||+|||.++++++|+++|++||.|++|+|+.++.   .|.++|||||+|.+.++|++|++. ++..+.
T Consensus        10 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~---~g~~~g~afV~f~~~~~a~~A~~~-~~~~~~   78 (87)
T 3s7r_A           10 DAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPN---TGRSRGFGFILFKDAASVEKVLDQ-KEHRLD   78 (87)
T ss_dssp             CTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTT---TCCEEEEEEEEESSTHHHHHHHHS-SCEEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCC---CCccccEEEEEECCHHHHHHHHHh-CCCEEC
Confidence            468999999999999999999999999999999999872   134556999999999999999976 555544

>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=99.67  E-value=1.5e-16  Score=119.06  Aligned_cols=70  Identities=17%  Similarity=0.097  Sum_probs=63.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHH----HhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVA----HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~----~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..++|||+|||+++++++|+    ++|++||.|++|+|+.++.. + |    ||||+|.+.++|++|++.|||+.+....
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~-r-g----~afV~f~~~~~A~~Ai~~l~g~~~~gr~   81 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDY-Q-L----KAVVQMENLQDAIGAVNSLHRYKIGSKK   81 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCST-T-C----CEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCC-C-e----EEEEEECCHHHHHHHHHHhCCCEECCeE
Confidence            35799999999999999999    99999999999999998743 3 4    9999999999999999999999988533

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

Probab=99.67  E-value=1.6e-16  Score=121.82  Aligned_cols=72  Identities=22%  Similarity=0.301  Sum_probs=64.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      ..++|||+|||.++|+++|+++|++||.|++|+|+.++++.+ |    ||||+|.+.++|++|++.|||..+.....
T Consensus        28 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~k-g----~afV~f~~~~~A~~Ai~~l~g~~~~g~~l   99 (109)
T 2err_A           28 QPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK-G----FGFVTFENSADADRAREKLHGTVVEGRKI   99 (109)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCT-T----EEEEECCCSHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCc-e----EEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            468999999999999999999999999999999999874432 3    99999999999999999999999876433

>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=99.67  E-value=2.4e-16  Score=118.00  Aligned_cols=67  Identities=24%  Similarity=0.291  Sum_probs=61.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+++.++     |    ||||+|.+.++|++|++.|||..+....
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~k-----g----~afV~f~~~~~a~~a~~~l~g~~~~g~~   80 (99)
T 2cpj_A           14 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK-----G----FGFIRLETRTLAEIAKVELDNMPLRGKQ   80 (99)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTT-----T----EEEEECSSSHHHHHHHHHHTTCCBTTBC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecCC-----C----EEEEEECCHHHHHHHHHHhCCCEeCCce
Confidence            36899999999999999999999999999999998664     5    9999999999999999999999987633

>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=99.67  E-value=1.5e-16  Score=123.79  Aligned_cols=77  Identities=18%  Similarity=0.232  Sum_probs=66.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ++++|||+|||.++|+++|+++|++||.|++|+|+.++ ++.    ++|||||+|.+.++|++|++.|||..|......+
T Consensus        21 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v   96 (126)
T 3ex7_B           21 EGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGY----LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISV   96 (126)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSS----BCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCc----cceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEE
Confidence            36899999999999999999999999999999999887 433    3449999999999999999999999987644444


Q ss_pred             EE
Q 026648          210 VV  211 (235)
Q Consensus       210 ~~  211 (235)
                      .+
T Consensus        97 ~~   98 (126)
T 3ex7_B           97 DW   98 (126)
T ss_dssp             EE
T ss_pred             EE
Confidence            33

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

Probab=99.67  E-value=3.2e-16  Score=113.62  Aligned_cols=67  Identities=18%  Similarity=0.262  Sum_probs=61.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHh-cCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL-QGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~L-nG~~i~~~r  206 (235)
                      ..++|||+|||.++++++|+++|++||.|.+|+++.++     |    ||||+|.+.++|++|++.| +|..+....
T Consensus        11 ~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~k-----g----~afV~f~~~~~A~~a~~~l~~~~~~~g~~   78 (85)
T 2ytc_A           11 TITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQ-----Q----CAFIQFATRQAAEVAAEKSFNKLIVNGRR   78 (85)
T ss_dssp             SCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGGG-----T----EEEEEESSHHHHHHHHHTTTTTCEETTEE
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECCC-----C----EEEEEECCHHHHHHHHHHhcCCeeECCCE
Confidence            46899999999999999999999999999999999864     5    9999999999999999999 998887643

>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=99.67  E-value=4.1e-16  Score=116.30  Aligned_cols=65  Identities=20%  Similarity=0.299  Sum_probs=60.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++++|||+|||.++|+++|+++|++||.|++|+++.++     |    ||||+|.+.++|++|++.|||..+..
T Consensus        16 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~~-----g----~afV~f~~~~~A~~A~~~l~g~~~~~   80 (97)
T 1why_A           16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGD-----S----FAYIQYESLDAAQAACAKMRGFPLGG   80 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSSS-----C----CEEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCCC-----C----EEEEEECCHHHHHHHHHHHCCCEeCC
Confidence            35899999999999999999999999999999998763     4    99999999999999999999999884

>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=99.67  E-value=9.2e-17  Score=119.65  Aligned_cols=75  Identities=19%  Similarity=0.146  Sum_probs=64.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .++|||+|||.++++++|+++|++||.|++++++.++.   .|+++|||||+|.+.++|++|++.|||..|......+
T Consensus        15 ~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~---~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V   89 (98)
T 2cqp_A           15 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNE---KGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKL   89 (98)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECS---SSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECC---CCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEE
Confidence            57999999999999999999999999999888887761   1445569999999999999999999999888644333

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

Probab=99.67  E-value=1.1e-16  Score=120.50  Aligned_cols=72  Identities=19%  Similarity=0.226  Sum_probs=64.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcC-CCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCce-Eeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRP-FVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQS-NIIC  205 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~-fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~-i~~~  205 (235)
                      .++++|||+|||.++|+++|+++|++ ||.|++|+|+.+++    |.++|||||+|.+.++|++|++.|+|.. +...
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~   80 (104)
T 2dhg_A            7 GPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQT----GVSKGYGFVKFTDELEQKRALTECQGAVGLGSK   80 (104)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTT----CCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCC----CCccceEEEEECCHHHHHHHHHHccCCcccCCE
Confidence            34689999999999999999999999 99999999999873    3455599999999999999999999998 7653

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

Probab=99.67  E-value=1.5e-16  Score=120.18  Aligned_cols=71  Identities=15%  Similarity=0.219  Sum_probs=63.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++++++|+++|++||.|++|+|+.++ +    |.++|||||+|.+.++|++|++. +|..|....
T Consensus        15 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~----g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~   86 (105)
T 2dh8_A           15 EIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTT----NQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRN   86 (105)
T ss_dssp             SSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSS----CCEEEEEEEEESSTTHHHHHHHH-CSEEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCC----CCcceEEEEEECCHHHHHHHHHh-CCCeECCEE
Confidence            46899999999999999999999999999999999986 3    34555999999999999999999 998887543

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

Probab=99.67  E-value=5.4e-17  Score=117.52  Aligned_cols=69  Identities=22%  Similarity=0.293  Sum_probs=60.3

Q ss_pred             CCeEEEcCCCCCC------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDC------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~v------teedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +++|||+|||.++      |+++|+++|++||.|++|+|+.. +    |.++|||||+|.+.++|++|++.|||+.+...
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 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEE-D----GKTKGYIFLEYASPAHAVDAVKNADGYKLDKQ   75 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCB-T----TBCCCEEEEEESSHHHHHHHHTTSSSCCCSSS
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCC-C----CcEeEEEEEEECCHHHHHHHHHHhcCcccCCc
Confidence            3699999999999      78999999999999999998843 3    23344999999999999999999999988754

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C

Probab=99.67  E-value=3.2e-17  Score=121.13  Aligned_cols=70  Identities=14%  Similarity=0.143  Sum_probs=61.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCC--CeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFV--GYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG--~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .+|||+|||+++|+++|+++|++||  .|.+|+|+.++ +    |+++|||||+|.+.++|++|++.|||+.+....
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~----g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~   74 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRAN----GQSKGFALVGVGSEASSKKLMDLLPKRELHGQN   74 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTT----CCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCC----CccCcEEEEEECCHHHHHHHHHHcCCCeeCCEE
Confidence            4799999999999999999999999  99999999987 3    455569999999999999999999999887643

>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=99.67  E-value=2.2e-16  Score=127.43  Aligned_cols=78  Identities=21%  Similarity=0.218  Sum_probs=67.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+|+.++.   .|.+++||||+|.+.++|++||+.|||..|......|.
T Consensus        38 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~---~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~  114 (156)
T 1h2v_Z           38 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM---KKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTD  114 (156)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC---CCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            468999999999999999999999999999999999872   13445599999999999999999999999976443333


Q ss_pred             E
Q 026648          211 V  211 (235)
Q Consensus       211 ~  211 (235)
                      +
T Consensus       115 ~  115 (156)
T 1h2v_Z          115 W  115 (156)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.67  E-value=2.8e-16  Score=119.28  Aligned_cols=70  Identities=21%  Similarity=0.283  Sum_probs=61.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEE-EEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~-vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ..++|||+|||+++|+++|+++|++||.|.+ |+|+.++++..+|    ||||+|.++++|++||+. +|..|...
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G----~afV~F~~~~~a~~A~~~-~~~~~~gr   84 (104)
T 1wg5_A           14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTG----EAFVQFASQEIAEKALKK-HKERIGHR   84 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCS----EEEEEESSHHHHHHHHTT-TTCCSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcce----EEEEEECCHHHHHHHHHh-CcchhCCc
Confidence            4689999999999999999999999999998 8888886443334    999999999999999998 88877653

>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=99.67  E-value=1.4e-16  Score=122.19  Aligned_cols=73  Identities=21%  Similarity=0.288  Sum_probs=64.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+|+.++.   .|.++|||||+|.+.++|++|++.|||..+....
T Consensus        25 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~---~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~   97 (108)
T 2jrs_A           25 GPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSE---TGRSKGYGFITFSDSECAKKALEQLNGFELAGRP   97 (108)
T ss_dssp             SCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETT---TTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCC---CCccceEEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            468999999999999999999999999999999999862   1445569999999999999999999999887533

>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=99.66  E-value=2e-16  Score=125.19  Aligned_cols=61  Identities=18%  Similarity=0.301  Sum_probs=56.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      ++++|||+|||+++||++|+++|++||.|++|+|+.++     |    ||||+|++.++|++|++.|++.
T Consensus        30 ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~k-----G----~AFVeF~~~e~A~~Ai~~l~~~   90 (119)
T 2ad9_A           30 PSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGK-----N----QAFIEMNTEEAANTMVNYYTSV   90 (119)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGGG-----T----EEEEECSCHHHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCCC-----C----EEEEEECCHHHHHHHHHHhccC
Confidence            46899999999999999999999999999999999874     5    9999999999999999999854

>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=99.66  E-value=2e-16  Score=121.97  Aligned_cols=77  Identities=12%  Similarity=0.099  Sum_probs=65.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCe-EEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGY-KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I-~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +.++|||+|||+++|+++|+++|++||.| .+|+|+.++++..+|    ||||+|.+.++|++||+. ||..|......+
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G----~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v   88 (114)
T 2cpy_A           14 AKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLG----QALVQFKNEDDARKSERL-HRKKLNGREAFV   88 (114)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSS----CEEEECSSHHHHHHHGGG-CSEEETTEEEEE
T ss_pred             CccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcce----EEEEEECCHHHHHHHHHh-CCCccCCeEEEE
Confidence            46899999999999999999999999999 889999988443334    999999999999999988 998887644444


Q ss_pred             EEE
Q 026648          210 VVF  212 (235)
Q Consensus       210 ~~~  212 (235)
                      .++
T Consensus        89 ~~a   91 (114)
T 2cpy_A           89 HVV   91 (114)
T ss_dssp             EEE
T ss_pred             EEC
Confidence            443

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

Probab=99.66  E-value=1.4e-16  Score=126.03  Aligned_cols=75  Identities=20%  Similarity=0.281  Sum_probs=66.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      +..++|||+|||.++|+++|+++|++||.|++|+|+.++.   .|+++|||||+|.+.++|++|++.|||..|.....
T Consensus        40 ~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~---~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l  114 (139)
T 1u6f_A           40 DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRE---TRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRL  114 (139)
T ss_dssp             TTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETT---TTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCC---CCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEE
Confidence            4568999999999999999999999999999999999872   13455699999999999999999999998885433

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

Probab=99.66  E-value=1.4e-16  Score=122.00  Aligned_cols=69  Identities=14%  Similarity=0.188  Sum_probs=61.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .++|||+|||+++|+++|+++|++||.|.+|+|+.++.+    .++|||||+|.+.++|++|++ ++|..+...
T Consensus        11 ~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~g----~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr   79 (103)
T 1s79_A           11 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHK----AFKGSIFVVFDSIESAKKFVE-TPGQKYKET   79 (103)
T ss_dssp             GGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTT----SCCCEEEEEESSHHHHHHHHT-SSCCCCTTT
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCC----CCccEEEEEECCHHHHHHHHH-cCCCEECCE
Confidence            479999999999999999999999999999999998743    334499999999999999999 899888753

>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=99.66  E-value=3e-16  Score=120.25  Aligned_cols=70  Identities=23%  Similarity=0.380  Sum_probs=62.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ..++|||+|||.++++++|+++|++||.|++|+|+.++ ++..    +|||||+|.+.++|++|+ .|||+.|...
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~----~g~afV~f~~~~~a~~A~-~l~g~~~~g~   94 (114)
T 2cq4_A           24 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRS----KGIAYVEFCEIQSVPLAI-GLTGQRLLGV   94 (114)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSC----CCCEEEEESCGGGHHHHH-HHTTEEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCcc----CcEEEEEeCcHHHHHHHH-HcCCCEeCCe
Confidence            35799999999999999999999999999999999987 3333    349999999999999999 9999988753

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

Probab=99.66  E-value=2e-16  Score=123.13  Aligned_cols=71  Identities=18%  Similarity=0.203  Sum_probs=63.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCC---eEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVG---YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~---I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ...++|||+|||+++|+++|+++|++||.   |++|+|+.++.    |+++|||||+|.+.++|++||+ |||..|...
T Consensus        15 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~----g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr   88 (118)
T 2db1_A           15 GEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTRE----GRQSGEAFVELESEDDVKLALK-KDRESMGHR   88 (118)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSS----SCEEEEEEEEBSSHHHHHHHGG-GTTEEETTE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCC----CCCCeEEEEEECCHHHHHHHHh-cCCCeECCe
Confidence            34689999999999999999999999999   89999999874    3455699999999999999999 999888753

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.66  E-value=1.3e-16  Score=120.15  Aligned_cols=78  Identities=19%  Similarity=0.203  Sum_probs=62.6

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       129 pd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      +...++|||+|||.++++++|+++|++|| |++|+|+.++..  .|+++|||||+|.+.++|++|+ .|+|..+......
T Consensus        16 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~--~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~   91 (100)
T 2j76_E           16 KSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSN--PERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIR   91 (100)
T ss_dssp             ----CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTT--TCCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCc--CCccCeEEEEEECCHHHHHHHH-hcCCCEECCeEEE
Confidence            34578999999999999999999999999 999999988610  1334449999999999999999 9999988764433


Q ss_pred             eE
Q 026648          209 LV  210 (235)
Q Consensus       209 ~~  210 (235)
                      +.
T Consensus        92 V~   93 (100)
T 2j76_E           92 VD   93 (100)
T ss_dssp             CE
T ss_pred             EE
Confidence            33

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

Probab=99.66  E-value=4e-16  Score=114.85  Aligned_cols=70  Identities=19%  Similarity=0.280  Sum_probs=62.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..++|||+|||+++|+++|+++|++| .|.+|+|+.+.+    |+++|||||+|.+.++|++|++ |||..|....
T Consensus         9 ~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~----g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~   78 (91)
T 2dgw_A            9 TCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAH----GNKTGYIFVDFSNEEEVKQALK-CNREYMGGRY   78 (91)
T ss_dssp             CCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTT----SCEEEEEEEECSSHHHHHHHHH-SCSEEETTEE
T ss_pred             CccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCC----CCCceEEEEEECCHHHHHHHHH-hCCceeCCcE
Confidence            46899999999999999999999999 999999999854    3455599999999999999999 9999987643

>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=99.65  E-value=8.4e-17  Score=119.04  Aligned_cols=71  Identities=18%  Similarity=0.149  Sum_probs=63.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .++|||+|||.++|+++|+++|++||.|++++++.++.   .|+++|||||+|.++++|++|++.|||..|...
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~---~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr   85 (95)
T 2ek1_A           15 PTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNE---KGMPTGEAMVAFESRDEATAAVIDLNDRPIGSR   85 (95)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECT---TSCEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCC---CCCEeeEEEEEECCHHHHHHHHHHhCCCeECCc
Confidence            47999999999999999999999999999999888761   144556999999999999999999999998753

>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=99.65  E-value=3.4e-16  Score=114.25  Aligned_cols=70  Identities=14%  Similarity=0.227  Sum_probs=62.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++|||+|||.++|+++|+++|++||.|.+|+++.++ ++    .++|||||+|.+.++|++|+ .|||..+....
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~   76 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSG----HPKGFAYIEFSDKESVRTSL-ALDESLFRGRQ   76 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSS----SCCEEEEEEESSTHHHHHHG-GGTTCEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCC----CcceEEEEEECCHHHHHHHH-hcCCCEECCcE
Confidence            4799999999999999999999999999999999986 43    34459999999999999999 99999987533

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.65  E-value=2.3e-16  Score=120.18  Aligned_cols=67  Identities=18%  Similarity=0.238  Sum_probs=59.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++|||+|||+++|++||+++|++|| +++|+|+.+++    |+++|||||+|.++++|++||+ +|+..|..
T Consensus        15 ~~~l~V~nLp~~~te~~l~~~F~~~G-~~~v~i~~d~~----g~~~G~afV~F~~~~~a~~Al~-~~~~~~~g   81 (102)
T 1wez_A           15 GHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPD----GRVTGEADVEFATHEDAVAAMA-KDKANMQH   81 (102)
T ss_dssp             SCEEEEESCCTTCCHHHHHHSSCSCC-CSEEEEEESSS----SCEEEEEEEECSSSHHHHHHHT-TSSCCSSS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcC-ceEEEEEECCC----CCEeeEEEEEECCHHHHHHHHH-hCCCeECC
Confidence            57999999999999999999999999 55999999874    4555699999999999999995 79887765

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

Probab=99.65  E-value=1.9e-16  Score=126.10  Aligned_cols=75  Identities=9%  Similarity=0.111  Sum_probs=61.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHH----HhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVA----HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~----~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++++|||+|||+++++++|+    ++|++||.|++|.+..+      |+++|||||+|.+.++|++|++.|||+.|....
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            36899999999999999876    69999999999988643      223349999999999999999999999988643


Q ss_pred             eceEE
Q 026648          207 SNLVV  211 (235)
Q Consensus       207 ~~~~~  211 (235)
                      ..+.+
T Consensus       102 l~V~~  106 (127)
T 2a3j_A          102 LVITF  106 (127)
T ss_dssp             CEEEE
T ss_pred             EEEEE
Confidence            33333

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

Probab=99.65  E-value=3.2e-16  Score=120.84  Aligned_cols=72  Identities=26%  Similarity=0.343  Sum_probs=61.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHh---cCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL---QGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~L---nG~~i~~  204 (235)
                      +++|||+|||+++|+++|+++|++||.|. ++++.++.....|+++|||||+|.+.++|++||++|   +|..+.+
T Consensus         8 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~~~G~~~~~   82 (114)
T 2dnl_A            8 SRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLEEDGKLYLC   82 (114)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEEETTEEEEE
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhhcCCcEEEe
Confidence            57999999999999999999999999999 888877622111345559999999999999999999   7877655

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

Probab=99.65  E-value=1.2e-16  Score=121.44  Aligned_cols=70  Identities=23%  Similarity=0.296  Sum_probs=61.5

Q ss_pred             CCCeEEEcCCCCCC------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDC------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~v------teedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .+++|||+|||..+      |+++|+++|++||.|++|+|+. .+    |.++|||||+|.+.++|++|++.|||+.+..
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 IDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPE-ED----GKTKGYIFLEYASPAHAVDAVKNADGYKLDK   88 (105)
T ss_dssp             CCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCC-BT----TBSCCEEEEEECSSSHHHHHHHHCSSEECST
T ss_pred             CCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeC-CC----CCeeeEEEEEECCHHHHHHHHHHhCCcccCC
Confidence            46899999999999      7899999999999999999983 33    3344499999999999999999999999886


Q ss_pred             e
Q 026648          205 C  205 (235)
Q Consensus       205 ~  205 (235)
                      .
T Consensus        89 ~   89 (105)
T 2nlw_A           89 Q   89 (105)
T ss_dssp             T
T ss_pred             C
Confidence            4

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.65  E-value=6.2e-17  Score=121.64  Aligned_cols=72  Identities=22%  Similarity=0.337  Sum_probs=64.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ..++|||+|||.++++++|+++|++||.|.+|+|+.++.   .|.++|||||+|.+.++|++|++.|||..+...
T Consensus         7 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~---~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   78 (104)
T 1p1t_A            7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRE---TGKPKGYGFCEYQDQETALSAMRNLNGREFSGR   78 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETT---TTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSS
T ss_pred             CccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCC---CCccceEEEEEECCHHHHHHHHHHhCCCeeCCc
Confidence            358999999999999999999999999999999998861   134556999999999999999999999988753

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

Probab=99.65  E-value=6.6e-16  Score=114.08  Aligned_cols=65  Identities=22%  Similarity=0.294  Sum_probs=59.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+++.       +    ||||+|.+.++|++|++.|||..+....
T Consensus         9 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~-------~----~afV~f~~~~~a~~A~~~l~g~~~~g~~   73 (92)
T 2dgt_A            9 ASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVK-------D----YAFVHMERAEDAVEAIRGLDNTEFQGKR   73 (92)
T ss_dssp             SSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECS-------S----EEEEEESCHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEC-------C----EEEEEECCHHHHHHHHHHhCCCeeCCcE
Confidence            468999999999999999999999999999999983       3    9999999999999999999999987533

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

Probab=99.65  E-value=8.5e-16  Score=115.16  Aligned_cols=68  Identities=15%  Similarity=0.186  Sum_probs=58.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +.++|||+|||.++|+++|+++|++||.|   +++.+.++    +++|||||+|.+.++|++|++.|||..|...
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~~~g----~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   81 (101)
T 2fc9_A           14 ESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQNG----KSKGYAFIEFASFEDAKEALNSCNKREIEGR   81 (101)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBCSSS----CBCSEEEEECSSHHHHHHHHHHTSSEEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEECCCC----CEeeEEEEEECCHHHHHHHHHHhCCCEeCCe
Confidence            46899999999999999999999999976   66666533    3334999999999999999999999988853

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

Probab=99.64  E-value=6.8e-16  Score=113.57  Aligned_cols=65  Identities=18%  Similarity=0.298  Sum_probs=59.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+++  +     |    ||||+|.+.++|++|++.|||..+....
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~--~-----g----~afV~f~~~~~A~~A~~~l~g~~~~g~~   71 (90)
T 2dnq_A            7 GMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--K-----N----YGFVHIEDKTAAEDAIRNLHHYKLHGVN   71 (90)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE--T-----T----EEEEEESSHHHHHHHHHHHTTCBCSSCB
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE--C-----C----EEEEEECCHHHHHHHHHHhcCCccCCcE
Confidence            46899999999999999999999999999999998  2     4    9999999999999999999999887543

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

Probab=99.64  E-value=3.1e-16  Score=128.41  Aligned_cols=75  Identities=11%  Similarity=0.122  Sum_probs=65.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCC--CeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFV--GYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG--~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      .++|||+|||+++|+++|+++|++||  .|.+|+|+.++ +    |+++|||||+|.+.++|++||+.|||+.|......
T Consensus        55 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~t----g~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~  130 (156)
T 3n9u_C           55 RAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRAN----GQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVD  130 (156)
T ss_dssp             -CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTT----CCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCC----CccceEEEEEECCHHHHHHHHHHcCCCEECCeEeE
Confidence            57999999999999999999999999  99999999997 3    45556999999999999999999999999864433


Q ss_pred             eE
Q 026648          209 LV  210 (235)
Q Consensus       209 ~~  210 (235)
                      +.
T Consensus       131 V~  132 (156)
T 3n9u_C          131 VR  132 (156)
T ss_dssp             EE
T ss_pred             EE
Confidence            33

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

Probab=99.64  E-value=1.3e-15  Score=127.01  Aligned_cols=80  Identities=20%  Similarity=0.199  Sum_probs=68.0

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       129 pd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      +.++++|||+|||.++++++|+++|++||.|++|+|+.++++..+|    ||||+|.+.++|++|++.|||..|......
T Consensus        85 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG----~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~  160 (177)
T 2f3j_A           85 VETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLG----TADVHFERRADALKAMKQYKGVPLDGRPMD  160 (177)
T ss_dssp             CTTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSC----CEEEEESCHHHHHHHHHHSTTCBCSSSBCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEee----EEEEEeCCHHHHHHHHHHhCCCEECCEEEE
Confidence            3457899999999999999999999999999999999987433334    999999999999999999999988764434


Q ss_pred             eEEE
Q 026648          209 LVVF  212 (235)
Q Consensus       209 ~~~~  212 (235)
                      +.++
T Consensus       161 V~~a  164 (177)
T 2f3j_A          161 IQLV  164 (177)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            4333

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

Probab=99.64  E-value=2.1e-16  Score=124.61  Aligned_cols=77  Identities=16%  Similarity=0.207  Sum_probs=65.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEE--EEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCc----eEe
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKE--VRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQ----SNI  203 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~--vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~----~i~  203 (235)
                      .+++|||+|||+++|+++|+++|++||.|..  |+|+.++ ++..    +|||||+|.+. +|++|++.|||.    .|.
T Consensus        22 ~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~----rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~   96 (131)
T 2m2b_A           22 ANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLN----RGFAFIQLSTI-EAAQLLQILQALHPPLTID   96 (131)
T ss_dssp             CCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSB----CSCEEEECCHH-HHHHHHHHHTTCCCSCCGG
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCc----ceEEEEEECCH-HHHHHHHHhcCCCCCccCC
Confidence            4689999999999999999999999999977  9999998 4433    44999999999 999999999999    777


Q ss_pred             eeeeceEEE
Q 026648          204 ICLSNLVVF  212 (235)
Q Consensus       204 ~~r~~~~~~  212 (235)
                      .....+.+.
T Consensus        97 gr~l~V~~a  105 (131)
T 2m2b_A           97 GKTINVEFA  105 (131)
T ss_dssp             GCCCCCEEC
T ss_pred             CEEEEEEEC
Confidence            644444443

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.64  E-value=6.9e-16  Score=116.06  Aligned_cols=68  Identities=21%  Similarity=0.242  Sum_probs=58.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      +.++|||+|||.++++++|+++|++||.|++|+|+.++.   .|.++|||||+|.+.++|++|++.  +..|.
T Consensus        14 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~---~g~~~g~afV~f~~~~~a~~A~~~--~~~~~   81 (103)
T 2cqg_A           14 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLK---TGHSKGFGFVRFTEYETQVKVMSQ--RHMID   81 (103)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSS---SCSEEEEEEEEESSHHHHHHHHHS--CEEET
T ss_pred             CCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCC---CCCccceEEEEECCHHHHHHHHHc--CCeeC
Confidence            468999999999999999999999999999999999872   144556999999999999999984  44444

>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=99.64  E-value=3.6e-16  Score=120.46  Aligned_cols=72  Identities=19%  Similarity=0.191  Sum_probs=63.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      .++|||+|||.++|+++|+++|++||.|++|+|+..+     |    ||||+|.+.++|++|++.|||+.+......+.+
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            4799999999999999999999999999999988643     4    999999999999999999999998864444444


Q ss_pred             E
Q 026648          212 F  212 (235)
Q Consensus       212 ~  212 (235)
                      +
T Consensus        81 a   81 (111)
T 1whx_A           81 A   81 (111)
T ss_dssp             E
T ss_pred             C
Confidence            3

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

Probab=99.64  E-value=4.2e-16  Score=131.65  Aligned_cols=73  Identities=21%  Similarity=0.239  Sum_probs=64.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .+.+||||+|||+++||++|+++|++||.|++|+|+.++ +    |+++|||||+|.+.++|++|++.|+|..+....
T Consensus        13 ~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~t----g~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~   86 (213)
T 4f02_A           13 YPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMIT----RRSLGYAYVNFQQPADAERALDTMNFDVIKGKP   86 (213)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT----CCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCC----CCccccccceeCCHHHHHHHHHHhhhhhcCCcc
Confidence            346899999999999999999999999999999999987 3    345559999999999999999999999877533

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

Probab=99.63  E-value=7.8e-16  Score=115.36  Aligned_cols=67  Identities=16%  Similarity=0.281  Sum_probs=61.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .+++|||+|||.++++++|+++|++||.|++|+++..+     |    ||||+|.+.++|++|++.|||..+....
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~-----g----~afV~f~~~~~A~~Ai~~l~g~~~~g~~   92 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEK-----G----CCFIKYDTHEQAAVCIVALANFPFQGRN   92 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEETTT-----T----EEEEECSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEecCC-----C----EEEEEECCHHHHHHHHHHhCCCeECCeE
Confidence            36899999999999999999999999999999998433     5    9999999999999999999999988543

>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=99.63  E-value=9.5e-16  Score=120.07  Aligned_cols=75  Identities=15%  Similarity=0.192  Sum_probs=61.6

Q ss_pred             CCCeEEEcCCCCC-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee-eeec
Q 026648          131 ASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII-CLSN  208 (235)
Q Consensus       131 ~~~tLfVgNLP~~-vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~-~r~~  208 (235)
                      ++++|||+|||++ +|+++|+++|++||.|++|+|+..+     |    ||||+|++.++|++|++.|++..+.. .+.+
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            3689999999998 9999999999999999999998653     5    99999999999999999997654332 2333


Q ss_pred             eEEEEe
Q 026648          209 LVVFYQ  214 (235)
Q Consensus       209 ~~~~~~  214 (235)
                      .|-++.
T Consensus        95 ~V~~a~  100 (112)
T 1x4f_A           95 KVDLSE  100 (112)
T ss_dssp             EEEEEC
T ss_pred             EEEECc
Confidence            344444

>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=99.63  E-value=3e-16  Score=116.44  Aligned_cols=69  Identities=19%  Similarity=0.221  Sum_probs=60.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHH----HhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVA----HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~----~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ++++|||+|||.++++++|+    ++|++||.|.+|+++..      |.++|||||+|.+.++|++|++.|||..+...
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~------~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~   79 (97)
T 1nu4_A            7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS------LKMRGQAFVIFKEVSSATNALRSMQGFPFYDK   79 (97)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH------HHHTTCEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcC------CCcCcEEEEEeCCHHHHHHHHHHhCCCEECCc
Confidence            46899999999999999999    99999999999998742      12223999999999999999999999998753

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

Probab=99.63  E-value=3.2e-16  Score=118.49  Aligned_cols=72  Identities=13%  Similarity=0.039  Sum_probs=62.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      +..|||+||++.+||++|+++|.+||+|++++++..+     |    ||||+|.++++|++|+++|||.++......+.+
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            5689999999999999999999999999999998743     5    999999999999999999999988853333333


Q ss_pred             E
Q 026648          212 F  212 (235)
Q Consensus       212 ~  212 (235)
                      +
T Consensus        78 A   78 (89)
T 2wbr_A           78 P   78 (89)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.63  E-value=3.1e-16  Score=122.43  Aligned_cols=78  Identities=18%  Similarity=0.241  Sum_probs=63.8

Q ss_pred             CCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       128 ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++...++|||+|||+++|+++|+++|++||.|.++.++.++ +    |+++|||||+|.+.++|++||+ |||..|....
T Consensus        21 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~----g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~   95 (124)
T 1wel_A           21 PHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPN----GKATGEGFVEFRNEADYKAALC-RHKQYMGNRF   95 (124)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTT----SSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCC----CCCCeEEEEEECCHHHHHHHHH-hCCCeECCcE
Confidence            34456899999999999999999999999999986555554 3    4455699999999999999999 9999887543


Q ss_pred             eceE
Q 026648          207 SNLV  210 (235)
Q Consensus       207 ~~~~  210 (235)
                      ..+.
T Consensus        96 i~V~   99 (124)
T 1wel_A           96 IQVH   99 (124)
T ss_dssp             BEEE
T ss_pred             EEEE
Confidence            3333

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

Probab=99.63  E-value=8.9e-16  Score=112.96  Aligned_cols=65  Identities=22%  Similarity=0.307  Sum_probs=59.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..++|||+|||.++|+++|+++|++||.|.+|+++.       |    ||||+|.+.++|++|++.|||..+....
T Consensus         8 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~-------~----~afV~f~~~~~a~~A~~~l~g~~~~g~~   72 (90)
T 2dnp_A            8 NTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVK-------D----YAFVHMEKEADAKAAIAQLNGKEVKGKR   72 (90)
T ss_dssp             CSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECS-------S----CEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEEC-------C----EEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            368999999999999999999999999999999983       3    9999999999999999999999987543

>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=99.63  E-value=8e-16  Score=117.17  Aligned_cols=67  Identities=24%  Similarity=0.419  Sum_probs=61.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..++|||+|||.++++++|+++|++||.|.+|+|+.++     |    ||||+|.+.++|++|++.|+|..|....
T Consensus        24 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~-----g----~afV~f~~~~~a~~A~~~l~g~~~~g~~   90 (109)
T 1x4g_A           24 KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK-----G----YSFVRFSTHESAAHAIVSVNGTTIEGHV   90 (109)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCCC-----C----EEEEEECCHHHHHHHHHHcCCCEECCcE
Confidence            36899999999999999999999999999999999874     5    9999999999999999999999888543

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

Probab=99.63  E-value=2.1e-16  Score=112.40  Aligned_cols=67  Identities=16%  Similarity=0.259  Sum_probs=59.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++|||+|||.++++++|+++|++||.|.+|+++.++ ++    .++|||||+|.+.++|++|++.++ ..+..
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~a~~~~~-~~~~g   68 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTK----RSRGFGFVTFMDQAGVDKVLAQSR-HELDS   68 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSS----SCSSEEEECCCCTTHHHHHHHTTT-CCCSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCC----CcCceEEEEEcCHHHHHHHHHhCC-CccCC
Confidence            479999999999999999999999999999999987 33    334499999999999999999888 65554

>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=99.63  E-value=7.5e-16  Score=124.00  Aligned_cols=79  Identities=20%  Similarity=0.213  Sum_probs=66.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ..++|||+|||.++|+++|+++|++||.|.+|+|+.++ ++.    ++|||||+|.+.++|++|++.|||..|.... +.
T Consensus        69 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~-l~  143 (158)
T 2kn4_A           69 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKE----SRGFAFVRFHDKRDAEDAMDAMDGAVLDGRE-LR  143 (158)
T ss_dssp             BCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTT----SCCEEEEEESBHHHHHHHHHHSTTEESSSSE-EE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCc----cceEEEEEECCHHHHHHHHHHhCCCEECCeE-EE
Confidence            36899999999999999999999999999999999986 433    3449999999999999999999999887533 33


Q ss_pred             EEEEe
Q 026648          210 VVFYQ  214 (235)
Q Consensus       210 ~~~~~  214 (235)
                      |.++.
T Consensus       144 v~~a~  148 (158)
T 2kn4_A          144 VQMAR  148 (158)
T ss_dssp             EEEEC
T ss_pred             EEECC
Confidence            33443

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

Probab=99.63  E-value=9.7e-16  Score=118.82  Aligned_cols=67  Identities=19%  Similarity=0.226  Sum_probs=60.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..+|||+|||+++|+++|+++|++| .|.+|+|+.++.++    ++|||||+|.++++|++|| .|||..|..
T Consensus        16 ~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~g~----~~G~afV~F~~~~~a~~Al-~~~~~~~~g   82 (109)
T 2dnn_A           16 DLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGR----NNGNGLVKFLSPQDTFEAL-KRNRMLMIQ   82 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTTCC----CCSEEEEECSSHHHHHHHH-HTTTEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCCCC----CCeEEEEEECCHHHHHHHH-hcCCCeECC
Confidence            4799999999999999999999999 89999999987433    3349999999999999999 689988875

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

Probab=99.62  E-value=1.2e-15  Score=113.94  Aligned_cols=69  Identities=22%  Similarity=0.314  Sum_probs=60.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..+++|||+|||.++|+++|+++|++||.|. ++++.++   .+|    ||||+|.+.++|++|++.|||..|....
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~~---~~g----~afV~f~~~~~a~~A~~~l~g~~~~g~~   85 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQG---PRR----RAFLHYPDSAAAQQAVSCLQGLRLGTDT   85 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEET---TTT----EEEEECSSHHHHHHHHHHHTTCCSSSSC
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcCC---CCc----EEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            3468999999999999999999999999997 7777653   224    9999999999999999999999887643

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

Probab=99.62  E-value=9.6e-16  Score=117.57  Aligned_cols=70  Identities=17%  Similarity=0.308  Sum_probs=59.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++.++|||+|||.++|+++|+++|++||.|.+|+|+.++ ++..+|    ||||+|.+.++|++|++.+ |..+..
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg----~afV~f~~~~~A~~Ai~~~-~~~l~g   93 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRG----FGFVTFMDQAGVDKVLAQS-RHELDS   93 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTT----CEEEEESSHHHHHHHHHSS-CEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCc----EEEEEECCHHHHHHHHHHC-CCcCCC
Confidence            356899999999999999999999999999999999987 333334    9999999999999999886 455554

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

Probab=99.62  E-value=2.3e-16  Score=125.82  Aligned_cols=71  Identities=21%  Similarity=0.272  Sum_probs=63.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +.++|||+|||.++|+++|+++|++||.|++|+|+.++ ++    .++|||||+|.+.++|++|++.|||..|...
T Consensus        46 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g----~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~  117 (135)
T 2lea_A           46 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTK----ESRGFAFVRFHDKRDAEDAMDAMDGAVLDGR  117 (135)
T ss_dssp             GCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSS----SCCSCCEEECSCHHHHHHHHTTTTTCCSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC----ccceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            46899999999999999999999999999999999886 43    3344999999999999999999999998754

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.62  E-value=1.8e-15  Score=113.37  Aligned_cols=70  Identities=30%  Similarity=0.385  Sum_probs=60.3

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .+.++|||+|||.++|+++|+++|++|+   +|+++.++ +    |.++|||||+|.+.++|++|++.|||..|....
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~---~~~~~~~~~~----~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   83 (102)
T 2fc8_A           13 QPSKTLFVKGLSEDTTEETLKESFDGSV---RARIVTDRET----GSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNK   83 (102)
T ss_dssp             CCCSSEEEECCCTTCCHHHHHHTSTTCS---EEEEEECSSS----CSEEEEEEEECSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCCEEEEeCCCCccCHHHHHHHhcCCe---EEEEEecCCC----CCcCcEEEEEECCHHHHHHHHHHhCCCeECCeE
Confidence            3468999999999999999999999874   77888876 3    345569999999999999999999999988643

>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=99.62  E-value=1.3e-15  Score=124.52  Aligned_cols=77  Identities=18%  Similarity=0.220  Sum_probs=66.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ++++|||+|||.++|+++|+++|++||.|++|+|+.++ +    |.++|||||+|.+.++|++||+.|||+.|......|
T Consensus        71 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~----g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V  146 (165)
T 1rk8_A           71 EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRT----GFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV  146 (165)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT----SSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCC----CcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            36899999999999999999999999999999999986 3    345569999999999999999999999987644333


Q ss_pred             EE
Q 026648          210 VV  211 (235)
Q Consensus       210 ~~  211 (235)
                      .+
T Consensus       147 ~~  148 (165)
T 1rk8_A          147 DW  148 (165)
T ss_dssp             EE
T ss_pred             EE
Confidence            33

>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=99.62  E-value=5.8e-16  Score=118.11  Aligned_cols=71  Identities=13%  Similarity=0.135  Sum_probs=62.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCC---eEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVG---YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~---I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +..++|||+|||+++|+++|+++|++||.   |.+|+|+.++.+.    ++|||||+|.+.++|++||+ |+|..+...
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~----~~G~afV~F~~~~~a~~Al~-~~~~~~~gr   82 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGK----RRGDALIEMESEQDVQKALE-KHRMYMGQR   82 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTST----TCSEEEEEBSSHHHHHHHHT-TTTCCSSSS
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCC----EeeEEEEEECCHHHHHHHHH-hCcceeCCe
Confidence            34689999999999999999999999988   8999999887433    34499999999999999999 999877643

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

Probab=99.62  E-value=3.6e-16  Score=110.99  Aligned_cols=66  Identities=20%  Similarity=0.265  Sum_probs=59.4

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +|||+|||.++|+++|+++|++||.|.+|+++.++ ++    .++|||||+|.+.++|++|++ |+|..+..
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~a~~-~~~~~~~g   67 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTN----RHRGFGFVTFESEDIVEKVCE-IHFHEINN   67 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSST----TSCBEEEEECSCHHHHHHHHS-SSCCCSSS
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC----CcCcEEEEEECCHHHHHHHHH-CCCCEECC
Confidence            59999999999999999999999999999999887 33    344599999999999999998 89988775

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.62  E-value=1.9e-15  Score=119.93  Aligned_cols=75  Identities=23%  Similarity=0.405  Sum_probs=66.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      +++|||+|||.++|+++|+++|++||.|.+|+++.++ +    |.++|||||+|.++++|++|++.|+|..+......+.
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~----~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~   77 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKIT----GQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVS   77 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTT----CCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCC----CcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEE
Confidence            5799999999999999999999999999999999987 4    3455699999999999999999999998876444433

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

Probab=99.61  E-value=5.8e-16  Score=120.65  Aligned_cols=69  Identities=14%  Similarity=0.187  Sum_probs=61.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG-~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..++|||+|||+++|+++|+++|++|| .|..++|+.++   ++|    ||||+|.+.++|++||+.|||..+....
T Consensus        27 ~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~~---~rG----faFV~F~~~e~A~~Ai~~lng~~l~Gr~   96 (111)
T 2jvr_A           27 KRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRD---FDG----TGALEFPSEEILVEALERLNNIEFRGSV   96 (111)
T ss_dssp             CCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSCS---SSC----CEEEEESSHHHHHHHHHHTTTEEETTEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcCC---CCC----EEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence            468999999999999999999999999 89999986543   224    9999999999999999999999988643

>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=99.61  E-value=1.7e-15  Score=114.29  Aligned_cols=63  Identities=21%  Similarity=0.325  Sum_probs=58.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .++|||+|||.++|+++|+++|++||.|++|+|++       |    ||||+|.+.++|++|++.|||..|...
T Consensus        11 ~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~~-------~----~afV~f~~~~~a~~A~~~l~g~~~~g~   73 (103)
T 2dgu_A           11 VKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLK-------D----YAFIHFDERDGAVKAMEEMNGKDLEGE   73 (103)
T ss_dssp             CCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEECS-------S----CEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEC-------C----EEEEEeCCHHHHHHHHHHHCCCccCCC
Confidence            58999999999999999999999999999999873       3    999999999999999999999988754

>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=99.61  E-value=5.2e-16  Score=120.12  Aligned_cols=66  Identities=18%  Similarity=0.195  Sum_probs=60.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..++|||+|||+++|+++|+++|++||.|++|+|+.+      |    ||||+|.+.++|++||+.|||++|....
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~------g----~afV~f~~~~~a~~Ai~~l~g~~~~gr~   80 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD------G----TGVVEFVRKEDMTYAVRKLDNTKFRSHE   80 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT------S----EEEEEESSHHHHHHHHHHHTTCBCCCTT
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC------C----EEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            3589999999999999999999999999999999876      4    9999999999999999999999988644

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

Probab=99.61  E-value=1.2e-15  Score=117.30  Aligned_cols=70  Identities=20%  Similarity=0.243  Sum_probs=61.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ..++|||+|||.++|+++|+++|++||.|++|+|+.++ ++..    +|||||+|.+.++|++||+. +|..|...
T Consensus        26 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~----~g~afV~f~~~~~a~~Ai~~-~~~~~~g~   96 (116)
T 1x4b_A           26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRS----RGFGFVTFSSMAEVDAAMAA-RPHSIDGR   96 (116)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSC----CSEEEEECSSHHHHHHHHTS-CSEEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCc----CceEEEEeCCHHHHHHHHHh-CCcEECCE
Confidence            35899999999999999999999999999999999986 3333    34999999999999999998 88887753

>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=99.61  E-value=5.6e-16  Score=124.76  Aligned_cols=70  Identities=19%  Similarity=0.194  Sum_probs=62.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCC---eEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVG---YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~---I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ..++|||+|||+++|+++|+++|++||.   |++|+|+.++.    |+++|||||+|.++++|++||+ |||..|...
T Consensus        43 ~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~----g~srG~aFV~F~~~e~a~~Al~-~~g~~l~gr  115 (136)
T 2hgl_A           43 EGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE----GRQSGEAFVELGSEDDVKMALK-KDRESMGHR  115 (136)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSS----SCEEEEEEEECSSHHHHHHHHT-TTEEESSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCC----CCCCeEEEEEECCHHHHHHHHh-cCCCEECCE
Confidence            4689999999999999999999999999   89999999874    4555699999999999999999 999887753

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

Probab=99.61  E-value=1e-15  Score=118.68  Aligned_cols=70  Identities=11%  Similarity=0.243  Sum_probs=62.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++|||+|||.++|+++|+++|++||.|++|+|+.++ +    |.++|||||+|.+.++|++|+ .|||..|....
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~----~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~  106 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFS----GHPKGYAYIEFAERNSVDAAV-AMDETVFRGRT  106 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTT----SSCEEEEEEEESSHHHHHHHH-TTTTCEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCC----CCcccEEEEEECCHHHHHHHH-hcCCCeECCeE
Confidence            5899999999999999999999999999999999986 3    344559999999999999999 89999987533

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

Probab=99.61  E-value=4.5e-15  Score=110.96  Aligned_cols=65  Identities=23%  Similarity=0.281  Sum_probs=59.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCC--CCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPF--VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~f--G~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++++|||+|||.++|+++|+++|++|  |.|.+|++.+       |    ||||+|.+.++|++|++.|||..|....
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~~-------g----~afV~f~~~~~A~~A~~~l~g~~~~g~~   80 (99)
T 2cpd_A           14 SVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIR-------D----YAFVHFSNREDAVEAMKALNGKVLDGSP   80 (99)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECS-------S----EEEEEESSHHHHHHHHHHHSSEEETTEE
T ss_pred             CcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEeC-------C----eEEEEeCCHHHHHHHHHHhCCCEeCCcE
Confidence            46899999999999999999999999  9999998752       4    9999999999999999999999987543

>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=99.61  E-value=3e-16  Score=126.92  Aligned_cols=69  Identities=16%  Similarity=0.197  Sum_probs=60.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ..++|||+|||+++||+||+++|++|| |++|+|+.++.+    +++|||||+|+++++|++|| .+|+..|...
T Consensus        45 ~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~g----~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR  113 (139)
T 2hgn_A           45 TGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPDG----RVTGEADVEFATHEEAVAAM-SKDRANMQHR  113 (139)
T ss_dssp             CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSSS----CSSCCCEEECSHHHHHHHHT-TCCSCSSSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCCC----CCceEEEEEeCCHHHHHHHH-hhCCCEECCE
Confidence            467999999999999999999999999 779999998743    34449999999999999999 7899877753

>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=99.60  E-value=1.6e-15  Score=119.28  Aligned_cols=63  Identities=17%  Similarity=0.272  Sum_probs=58.2

Q ss_pred             CCCeEEE--cCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceE
Q 026648          131 ASSTLFV--EGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSN  202 (235)
Q Consensus       131 ~~~tLfV--gNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i  202 (235)
                      ++++|||  +||++++|+++|+++|++||.|.+|.|+.++     |    ||||+|.+.++|++|++.|||.++
T Consensus        24 pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~r-----g----faFV~f~~~~~A~~Ai~~lnG~~~   88 (114)
T 2cq2_A           24 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNK-----P----YSFARYRTTEESKRAYVTLNGKEV   88 (114)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTC-----S----CEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCCC-----C----EEEEEECCHHHHHHHHHHhCCCEE
Confidence            4689999  7799999999999999999999999987643     5    999999999999999999999988

>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=99.60  E-value=2.5e-15  Score=119.90  Aligned_cols=75  Identities=24%  Similarity=0.319  Sum_probs=65.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      +++|||+|||.++|+++|+++|++||.|.+|+++.++ ++    .++|||||+|.++++|++|++.|+|..+......+.
T Consensus         3 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~   78 (168)
T 1b7f_A            3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTG----YSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVS   78 (168)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTT----EECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCC----ccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEE
Confidence            5899999999999999999999999999999999886 43    334499999999999999999999998875443333

>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=99.60  E-value=2.1e-16  Score=115.95  Aligned_cols=75  Identities=16%  Similarity=0.243  Sum_probs=63.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      ++|||+|||.++++++|+++|++||.|++|+++.++.   .|.++|||||+|.+.+ |++|++.|||..+......+.+
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~---~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~   76 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRE---TKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTE   76 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSS---SCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEE
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCC---CCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEE
Confidence            5899999999999999999999999999999998872   1334459999999999 9999999999998764434433

>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=99.60  E-value=4.1e-15  Score=111.77  Aligned_cols=66  Identities=21%  Similarity=0.410  Sum_probs=59.7

Q ss_pred             CCCCeEEEcCCCC-CCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          130 DASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       130 d~~~tLfVgNLP~-~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++++|||+|||. ++++++|+++|++||.|.+|++.       +|    ||||+|.+.++|++|++.|||..+....
T Consensus        20 ~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~-------~g----~afV~f~~~~~A~~Ai~~l~g~~~~g~~   86 (97)
T 2xnq_A           20 HMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK-------NA----FGFIQFDNPQSVRDAIEXESQEMNFGKK   86 (97)
T ss_dssp             CTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC-------SS----EEEEEESSHHHHHHHHHHHTTSEETTEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe-------CC----EEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            3578999999998 99999999999999999999984       14    9999999999999999999999887533

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

Probab=99.60  E-value=3.7e-15  Score=118.55  Aligned_cols=63  Identities=17%  Similarity=0.199  Sum_probs=57.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceE-EEEEecCHHHHHHHHHHhcCceEee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL-CFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~f-aFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      -.|||+|||+.+|+++|+++|++||.|++|+|...    . |    | |||+|.+.++|+.|+++|||..|..
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~----~-G----f~aFVef~~~~~A~~A~~~LnG~~i~g   89 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKR----N-G----IQAMVEFESVLCAQKAKAALNGADIYA   89 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEES----S-S----EEEEEEESSHHHHHHHHHHHTTCCCBT
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeC----C-C----CEEEEEECCHHHHHHHHHHhCCCEecC
Confidence            34689999999999999999999999999999753    2 4    8 9999999999999999999999975

>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=99.60  E-value=1.2e-15  Score=115.66  Aligned_cols=70  Identities=21%  Similarity=0.190  Sum_probs=60.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCC-eEEEEEe-eCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhc--CceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVG-YKEVRLV-SKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQ--GQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~-I~~vrl~-~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln--G~~i~~~  205 (235)
                      .++|||+|||.++|+++|+++|++||. |++|+|+ .++ ++    .++|||||+|.+.++|++|++.|+  +..+...
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g----~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~   82 (109)
T 2dis_A            8 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKM----KNRGFAFVEYESHRAAAMARRKLMPGRIQLWGH   82 (109)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTT----TTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTB
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCC----CcCcEEEEEecCHHHHHHHHHHhhCCCceecCC
Confidence            589999999999999999999999998 9999998 555 32    334499999999999999999996  4777653

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

Probab=99.60  E-value=3.2e-15  Score=114.76  Aligned_cols=64  Identities=34%  Similarity=0.609  Sum_probs=59.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .+++|||+|||.++|+++|+++|++||.|++|+++  +     |    ||||+|.+.++|++|++.|||..+...
T Consensus        30 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~--k-----g----~afV~f~~~~~A~~Ai~~l~g~~~~g~   93 (108)
T 2jvo_A           30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--N-----G----FAFVEFEEAESAAKAIEEVHGKSFANQ   93 (108)
T ss_dssp             SCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE--T-----T----EEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE--C-----C----EEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            46899999999999999999999999999999998  2     5    999999999999999999999998653

>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=99.59  E-value=7.2e-15  Score=112.02  Aligned_cols=69  Identities=19%  Similarity=0.299  Sum_probs=60.8

Q ss_pred             CCCeEEEcCCCCC-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~-vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .+++|||+|||.+ +|+++|+++|++||.|++|+|  .    + |    ||||+|.+.++|++|++.|||..|......+
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i--~----~-g----~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V   94 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--H----K-G----YAFVQYSNERHARAAVLGENGRVLAGQTLDI   94 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE--E----T-T----EEEEECSSSHHHHHHHHHHTTCEETTEECCE
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE--e----C-C----EEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence            4689999999999 999999999999999999999  1    2 4    9999999999999999999999988644333


Q ss_pred             E
Q 026648          210 V  210 (235)
Q Consensus       210 ~  210 (235)
                      .
T Consensus        95 ~   95 (110)
T 1wf1_A           95 N   95 (110)
T ss_dssp             E
T ss_pred             E
Confidence            3

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

Probab=99.59  E-value=3.8e-15  Score=111.15  Aligned_cols=71  Identities=23%  Similarity=0.381  Sum_probs=62.1

Q ss_pred             CCCeEEEcCCCC-CCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~-~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ++++|||+|||. ++|+++|+++|++||.|++|+|.  +     |    ||||+|.+.++|++|++.|||..+......+
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            368999999998 99999999999999999999985  1     4    9999999999999999999999888544444


Q ss_pred             EEE
Q 026648          210 VVF  212 (235)
Q Consensus       210 ~~~  212 (235)
                      .+.
T Consensus        78 ~~a   80 (96)
T 2kvi_A           78 EVS   80 (96)
T ss_dssp             EEE
T ss_pred             EEc
Confidence            443

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

Probab=99.59  E-value=2.6e-16  Score=118.17  Aligned_cols=70  Identities=20%  Similarity=0.397  Sum_probs=60.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHH---HhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMD---ALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~---~LnG~~i~~  204 (235)
                      .+++|||+|||.++++++|+++|++||.|.+|+|+.+++    |.++|||||+|.+.++|++|++   .|+|.+|.+
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----GVSKGYGFVSFYNDVDVQKIVESQINFHGKKLKL   80 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT----SCEEEEEEEEESSCCCHHHHTTCCCEETTEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCC----CCccceEEEEECCHHHHHHHHhCCCeECCEEEEE
Confidence            358999999999999999999999999999999999873    3455699999999999999999   555555554

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

Probab=99.59  E-value=1.1e-15  Score=114.60  Aligned_cols=66  Identities=23%  Similarity=0.413  Sum_probs=60.3

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++|||+|||.++|+++|+++|++||.|++|+++.+    .+|    ||||+|.+.++|++|++.|||..+....
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~----~~g----~afV~f~~~~~a~~A~~~l~g~~~~g~~   66 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN----PPG----FAFVEFEDPRDAEDAVRGLDGKVICGSR   66 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS----SSS----EEEEECSSHHHHHHHHHHHHHSCSSSCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC----CCC----EEEEEECCHHHHHHHHHHHCCCeECCcE
Confidence            48999999999999999999999999999999987    224    9999999999999999999999887544

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

Probab=99.59  E-value=2.8e-15  Score=118.89  Aligned_cols=75  Identities=13%  Similarity=0.222  Sum_probs=65.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      ++|||+|||.++|+++|+++|++||.|.+|+++.++.+    +++|||||+|.+.++|++|++.|+|..+......+.+
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~   75 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN----KNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINW   75 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-----CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCCC----CCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEE
Confidence            48999999999999999999999999999999998743    3445999999999999999999999998764444443

>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=99.59  E-value=1e-15  Score=132.51  Aligned_cols=75  Identities=13%  Similarity=0.131  Sum_probs=65.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCC--CeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFV--GYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG--~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      ..++|||+|||+++|+++|+++|++||  .|++|+|+.++ +    |+++|||||+|.+.++|++||+.|||+.|.....
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~t----g~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l  142 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRAN----GQSKGFALVGVGSEASSKKLMDLLPKRELHGQNP  142 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTT----CCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCC----CccceEEEEEECCHHHHHHHHHHcCCCeECCEEe
Confidence            357999999999999999999999999  99999999997 4    4455699999999999999999999999886433


Q ss_pred             ce
Q 026648          208 NL  209 (235)
Q Consensus       208 ~~  209 (235)
                      .|
T Consensus       143 ~V  144 (229)
T 3q2s_C          143 VV  144 (229)
T ss_dssp             EE
T ss_pred             EE
Confidence            33

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

Probab=99.59  E-value=1.6e-15  Score=112.48  Aligned_cols=68  Identities=21%  Similarity=0.301  Sum_probs=57.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++|+++|+++|++||.|..+    ...    |.++|||||+|.+.++|++|++.|+|..|....
T Consensus        15 ~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~----~~~----~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   82 (96)
T 1fjc_A           15 AARTLLAKNLSFNITEDELKEVFEDALEIRLV----SQD----GKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRS   82 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSEEEECCE----EET----TEEEEEEEEEESSHHHHHHHHHHTTEEEETTEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe----CCC----CCcceEEEEEECCHHHHHHHHHHhCCCEECCeE
Confidence            46899999999999999999999999877655    222    344559999999999999999999999887543

>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=99.59  E-value=2.8e-15  Score=119.46  Aligned_cols=68  Identities=19%  Similarity=0.267  Sum_probs=58.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeE--EEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYK--EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~--~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..++|||+|||+++|+++|+++|++| +|+  +|+|+.++.+    +++|||||+|.++++|++||+. ++..|..
T Consensus        41 ~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~G----rsrGfaFV~F~~~e~A~~Al~~-~~~~l~g  110 (126)
T 2hgm_A           41 NDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPEG----KITGEAFVQFASQELAEKALGK-HKERIGH  110 (126)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSSS----SSCSEEEEEESSTTHHHHHHTT-TTCCBTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCCC----CCceEEEEEECCHHHHHHHHHH-CCCEECC
Confidence            35799999999999999999999999 788  8999998743    3444999999999999999985 6666654

>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=99.59  E-value=1.6e-15  Score=111.97  Aligned_cols=69  Identities=19%  Similarity=0.295  Sum_probs=58.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCC-eEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcC-ceEeeeeec
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVG-YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQG-QSNIICLSN  208 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~-I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG-~~i~~~r~~  208 (235)
                      ..++|||+|||.++|+++|+++|++||. |..+.+. .+     |    ||||+|.+.++|++|++.||| ..+......
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 GMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL-KS-----G----YAFVDYPDQNWAIRAIETLSGKVELHGKIME   76 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE-ET-----T----EEEECCSCHHHHHHHHHHHTTTCEETTEECE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc-CC-----C----EEEEEECCHHHHHHHHHHccCCeeECCEEEE
Confidence            3689999999999999999999999999 5555553 22     4    999999999999999999999 888754333


Q ss_pred             e
Q 026648          209 L  209 (235)
Q Consensus       209 ~  209 (235)
                      +
T Consensus        77 v   77 (93)
T 2cqh_A           77 V   77 (93)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.58  E-value=2.7e-15  Score=120.16  Aligned_cols=79  Identities=24%  Similarity=0.429  Sum_probs=67.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee-e-eec
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII-C-LSN  208 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~-~-r~~  208 (235)
                      ..++|||+|||.++|+++|+++|++||.|++|+++.++.    |.++|||||+|.+.++|++|++.|||..+.. | +..
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            357999999999999999999999999999999999874    3455699999999999999999999987764 3 344


Q ss_pred             eEEEE
Q 026648          209 LVVFY  213 (235)
Q Consensus       209 ~~~~~  213 (235)
                      .+.++
T Consensus       170 ~V~~a  174 (175)
T 3nmr_A          170 VVKFA  174 (175)
T ss_dssp             EEEEC
T ss_pred             EEEec
Confidence            44444

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.58  E-value=1.3e-14  Score=108.15  Aligned_cols=64  Identities=22%  Similarity=0.307  Sum_probs=57.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ++++|||+||  ++|+++|+++|++||.|++|+|...+     |    ||||+|.+.++|++|++.|||..|...
T Consensus        14 ~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~~~~-----g----~afV~f~~~~~a~~Ai~~l~g~~~~g~   77 (97)
T 1x5p_A           14 KGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMDPPR-----N----CAFVTYEKMESADQAVAELNGTQVESV   77 (97)
T ss_dssp             CCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHTTTEEETTE
T ss_pred             CCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEecCCC-----C----EEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            4689999996  99999999999999999999996332     5    999999999999999999999988753

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

Probab=99.58  E-value=3.7e-15  Score=110.48  Aligned_cols=69  Identities=13%  Similarity=0.159  Sum_probs=60.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEE-EeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVR-LVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vr-l~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .+++|||+|||+++|+++|+++|++||.|++|+ |+.++.   .|    .|||+|.+.++|++|++.|||+.|....
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~---~~----~afV~f~~~~~a~~Ai~~l~g~~~~g~~   83 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSE---TA----VVNVTYSSKDQARQALDKLNGFQLENFT   83 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSS---SE----EEEEEESSHHHHHHHHHHHTTCBCSSCB
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCC---CC----EEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            368999999999999999999999999999995 777752   13    6999999999999999999999987533

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

Probab=99.58  E-value=1.1e-14  Score=115.33  Aligned_cols=72  Identities=26%  Similarity=0.332  Sum_probs=64.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||.++|+++|+++|++||.|.+++++.++ +    |.++|||||+|.+.++|++|++.|||..+....
T Consensus        86 ~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~----~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~  158 (166)
T 3md3_A           86 DTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQT----GSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRP  158 (166)
T ss_dssp             TCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTT----CCEEEEEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             CCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCC----CCcceEEEEEeCCHHHHHHHHHHhCCCccCCcE
Confidence            46799999999999999999999999999999999986 3    345569999999999999999999999987543

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

Probab=99.57  E-value=8.2e-15  Score=117.72  Aligned_cols=64  Identities=20%  Similarity=0.257  Sum_probs=58.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceE-EEEEecCHHHHHHHHHHhcCceEee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL-CFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~f-aFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      -.|||+||++.+|+++|+++|++||.|++|+|+.+.   + |    | |||+|.+.++|++|+++|||+.|..
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~---~-g----fqAFVef~~~~~A~~Ai~~LnG~~i~g   93 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN---N-Q----FQALLQYADPVSAQHAKLSLDGQNIYN   93 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEET---T-E----EEEEEEESCHHHHHHHHHHHTTCEEET
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCC---C-C----cEEEEEECCHHHHHHHHHHcCCCeecC
Confidence            468899999999999999999999999999988653   2 3    7 9999999999999999999999986

>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=99.57  E-value=3.7e-15  Score=113.92  Aligned_cols=68  Identities=18%  Similarity=0.321  Sum_probs=58.1

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCe----EEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGY----KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I----~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++++|||+|||.++|+++|+++|++||.|    ..+++..       |.++|||||+|.+.++|++|++.|||..|..
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~-------g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   94 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMT-------GRMRGQAFITFPNKEIAWQALHLVNGYKLYG   94 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEEC-------SSSCSEEEEECSSHHHHHHHHHHSTTCBCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCC-------CccceEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            357899999999999999999999999999    5555552       2233399999999999999999999998864

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A

Probab=99.57  E-value=4.7e-15  Score=118.91  Aligned_cols=66  Identities=23%  Similarity=0.402  Sum_probs=60.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..++|||+|||+++|+++|+++|++||.|++|+|+.+.    +|    ||||+|.+.++|++|++.|||..|..
T Consensus        72 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~----~g----~afV~f~~~~~a~~A~~~l~g~~~~g  137 (150)
T 2i2y_A           72 LDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNP----PG----FAFVEFEDPRDAADAVRELDGRTLCG  137 (150)
T ss_dssp             TSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSSS----CS----EEEEEESSHHHHHHHHHHHSSSCSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeCC----Cc----EEEEEECCHHHHHHHHHHcCCCEECC
Confidence            46899999999999999999999999999999999872    24    99999999999999999999998864

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.57  E-value=2.8e-15  Score=108.85  Aligned_cols=65  Identities=18%  Similarity=0.260  Sum_probs=59.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCC----C-------CeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPF----V-------GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~f----G-------~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      .++|||+|||.++|+++|+++|++|    |       .|.++++..++     |    ||||+|.+.++|++|+ .|||.
T Consensus         6 ~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~k-----g----~afV~f~~~~~a~~A~-~l~g~   75 (87)
T 2hzc_A            6 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK-----N----FAFLEFRSVDETTQAM-AFDGI   75 (87)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSSS-----S----EEEEEESSHHHHHHHG-GGTTC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCCC-----c----EEEEEcCCHHHHHHHH-hcCCC
Confidence            5899999999999999999999999    8       89999998764     5    9999999999999999 99999


Q ss_pred             eEeeee
Q 026648          201 SNIICL  206 (235)
Q Consensus       201 ~i~~~r  206 (235)
                      .+....
T Consensus        76 ~~~g~~   81 (87)
T 2hzc_A           76 IFQGQS   81 (87)
T ss_dssp             EETTEE
T ss_pred             EECCeE
Confidence            987643

>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=99.57  E-value=3.4e-15  Score=124.37  Aligned_cols=67  Identities=19%  Similarity=0.198  Sum_probs=60.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ...+|||+||++.+|+++|+++|++||.|++|+|..++   .+|    ||||+|++.++|++|++.|||..|..
T Consensus        45 ~vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~---~rg----fAFVeF~d~~~A~~Ai~~LnG~~i~g  111 (164)
T 1sjr_A           45 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN---NQF----QALLQYADPVSAQHAKLSLDGQNIYN  111 (164)
T ss_dssp             CEEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESS---SCE----EEEEEESCHHHHHHHHHHSTTBCSSS
T ss_pred             ceEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCC---CCC----EEEEEECCHHHHHHHHHHhCCCEecC
Confidence            34679999999999999999999999999999997653   234    99999999999999999999999964

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

Probab=99.57  E-value=5e-16  Score=116.41  Aligned_cols=68  Identities=19%  Similarity=0.235  Sum_probs=58.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..++|||+|||.++|+++|+++|++||.|.+ +++.++ ++..+|    ||||+|.+.++|++|++ |||..|..
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~~~g----~afV~f~~~~~a~~A~~-l~g~~~~g   84 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNRK----FGYVDFESAEDLEKALE-LTGLKVFG   84 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTT----EEEEEESSHHHHHHHHH-GGGCCBTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCCCcCc----EEEEEECCHHHHHHHHh-cCCcEECC
Confidence            4689999999999999999999999999988 556554 333334    99999999999999999 99998874

>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=99.57  E-value=4.5e-15  Score=118.12  Aligned_cols=74  Identities=18%  Similarity=0.294  Sum_probs=60.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEE--------EEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCce
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEV--------RLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQS  201 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~v--------rl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~  201 (235)
                      .++++|||+|||+++|+++|+++|++||.|.++        ++..  +    |.++|||||+|.+.++|++|++.|||+.
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 EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMK--E----GRMKGQAFIGLPNEKAAAKALKEANGYV  116 (143)
T ss_dssp             SCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEE--E----TTTEEEEEEECSSHHHHHHHHHHHTTBE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEecc--C----CCcccEEEEEeCCHHHHHHHHHHhCCCE
Confidence            346899999999999999999999999998874        3332  2    3344599999999999999999999999


Q ss_pred             Eeeeeece
Q 026648          202 NIICLSNL  209 (235)
Q Consensus       202 i~~~r~~~  209 (235)
                      |......+
T Consensus       117 ~~g~~l~V  124 (143)
T 3egn_A          117 LFGKPMVV  124 (143)
T ss_dssp             ETTEECEE
T ss_pred             eCCcEEEE
Confidence            98544333

>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=99.57  E-value=6.4e-15  Score=108.23  Aligned_cols=66  Identities=21%  Similarity=0.255  Sum_probs=58.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      +++|||+|||.++++++|+++|++| .|++|++...     +|    ||||+|.++++|++|++.|||..+.....
T Consensus         5 ~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~~~-----~g----~afV~f~~~~~a~~Ai~~l~g~~~~g~~l   70 (88)
T 1wg1_A            5 SSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVDRN-----KR----TAFVTLLNGEQAQNAIQMFHQYSFRGKDL   70 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEEGG-----GT----EEEECCSCHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEeCC-----Cc----EEEEEECCHHHHHHHHHHhCCCeECCcEE
Confidence            5799999999999999999999999 9999998522     24    99999999999999999999999886443

>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=99.56  E-value=7.5e-15  Score=117.76  Aligned_cols=113  Identities=16%  Similarity=0.165  Sum_probs=84.4

Q ss_pred             CcCCCCCCCC-CcccCCCCCCCCCCCCccccCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHH
Q 026648           73 ISSYSGGQSA-RHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAH  151 (235)
Q Consensus        73 ~~s~~~g~~~-r~~gGg~~G~~~~~r~~~g~gg~~~~~~~~~r~~g~~~~~p~~~~ppd~~~tLfVgNLP~~vteedL~~  151 (235)
                      |+.|.+.+.+ .++  .++|..+.++.+...-.                   ....++...++|||+|||.++|+++|++
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            6667665444 455  57777777665432211                   0011122357999999999999999999


Q ss_pred             hhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          152 IFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       152 lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      +|++||.|.+|+++.++ +    |.++|||||+|.+.++|++|++.|||..+......+.
T Consensus       114 ~f~~~G~v~~v~i~~~~~~----g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~  169 (172)
T 2g4b_A          114 LLTSFGPLKAFNLVKDSAT----GLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQ  169 (172)
T ss_dssp             HHHTTSCEEEEEEEECTTT----CSEEEEEEEEESSTTHHHHHHHHHTTCEETTEECEEE
T ss_pred             HHHhcCCceEEEEEecCCC----CCcceEEEEEeCCHHHHHHHHHHcCCCEECCeEEEEE
Confidence            99999999999999986 3    3455699999999999999999999999986444433

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

Probab=99.56  E-value=6.1e-16  Score=122.56  Aligned_cols=69  Identities=20%  Similarity=0.219  Sum_probs=60.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCe----EEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGY----KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I----~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ...+|||+|||+++|+++|+++|++||.|    .+|+|+.+++    |+++|||||+|.+.++|++||+. ++..|..
T Consensus        22 ~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~----gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~g   94 (123)
T 2dha_A           22 NQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPD----GRPTGDAFVLFACEEYAQNALRK-HKDLLGK   94 (123)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTT----SCEEEEEEECCSSHHHHHHHHTT-TTEESSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCC----CCEeeEEEEEECCHHHHHHHHHh-CCCeeCC
Confidence            35799999999999999999999999875    6899998864    45556999999999999999987 8876664

>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=99.56  E-value=1e-15  Score=108.44  Aligned_cols=66  Identities=18%  Similarity=0.352  Sum_probs=58.0

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ||||+|||.++|+++|+++|++||.|.+|+++.++ ++    .++|||||+|.+.++|++|++. +|..+..
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~----~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g   67 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTN----KRRGFCFITFKEEEPVKKIMEK-KYHNVGL   67 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCS----SSCCCEEEECSSSHHHHHHHTT-SSCCBTT
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC----CcCCEEEEEECCHHHHHHHHHh-CCCeECC
Confidence            69999999999999999999999999999999886 33    3344999999999999999985 7776654

>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=99.56  E-value=1.3e-14  Score=107.70  Aligned_cols=64  Identities=23%  Similarity=0.285  Sum_probs=54.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +.++|||+|||+++|+++|+++|++||.|++|+|+.+    ++|    ||||+|+++++|+    +|+|..+....
T Consensus        10 ~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~----srG----faFV~F~~~~~A~----~~~~~~~~~~g   73 (89)
T 3d2w_A           10 HGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP----FRA----FAFVTFADDKVAQ----SLCGEDLIIKG   73 (89)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS----CCS----EEEEEESCHHHHH----HHTTCEEEETT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC----CCC----EEEEEECCHHHHH----HHcCCCcccCC
Confidence            3589999999999999999999999999999999975    224    9999999999998    36787666433

>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=99.55  E-value=9e-15  Score=117.12  Aligned_cols=72  Identities=22%  Similarity=0.418  Sum_probs=63.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +++|||+|||+++|+++|+++|++||.|.+|+|+.++.... +.++|||||+|.+.++|++|++.|+|..+..
T Consensus         3 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~-~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~   74 (175)
T 3nmr_A            3 AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNP-PQSKGCCFVTFYTRKAALEAQNALHNMKVLP   74 (175)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSS-CEEEEEEEEEESSHHHHHHHHHHHTTTCCCT
T ss_pred             ceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCC-CCcceEEEEEECCHHHHHHHHHHhcCcEEcc
Confidence            58999999999999999999999999999999999883210 1455699999999999999999999988764

>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=99.55  E-value=7e-15  Score=120.28  Aligned_cols=77  Identities=14%  Similarity=0.218  Sum_probs=64.1

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       129 pd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      ++..++|||+|||.++|+++|+++|++||.|.+|+|+.++.   .|.++|||||+|.+.++|++|++. +|..+......
T Consensus        10 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~---~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~   85 (196)
T 1l3k_A           10 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPN---TKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVE   85 (196)
T ss_dssp             CGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHHT-CSCEETTEECE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCC---CCCccceEEEEeCCHHHHHHHHhc-CCCEECCEEee
Confidence            34578999999999999999999999999999999999872   134556999999999999999987 77766654333


Q ss_pred             e
Q 026648          209 L  209 (235)
Q Consensus       209 ~  209 (235)
                      +
T Consensus        86 v   86 (196)
T 1l3k_A           86 P   86 (196)
T ss_dssp             E
T ss_pred             e
Confidence            3

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

Probab=99.32  E-value=3.2e-16  Score=120.67  Aligned_cols=74  Identities=23%  Similarity=0.274  Sum_probs=64.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEE--------EEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKE--------VRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSN  202 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~--------vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i  202 (235)
                      +++|||+|||.++++++|+++|++||.|.+        |+|+.++ ++    .++|||||+|.+.++|++|++.|||..+
T Consensus         7 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g----~~~g~afV~f~~~~~A~~Ai~~l~g~~~   82 (116)
T 2lcw_A            7 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETG----KLKGEATVSFDDPPSAKAAIDWFDGKEF   82 (116)
Confidence            589999999999999999999999999999        8999886 33    3334999999999999999999999988


Q ss_pred             eeeeece
Q 026648          203 IICLSNL  209 (235)
Q Consensus       203 ~~~r~~~  209 (235)
                      ......+
T Consensus        83 ~g~~l~V   89 (116)
T 2lcw_A           83 SGNPIKV   89 (116)
Confidence            8543333

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

Probab=99.55  E-value=7.6e-15  Score=123.88  Aligned_cols=72  Identities=17%  Similarity=0.221  Sum_probs=64.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      .++|||+|||+++|+++|+++|++||.|++|+|+.++++     ++|||||+|.+.++|++||+.|||+.|......
T Consensus       103 ~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~-----~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~  174 (213)
T 4f02_A          103 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG-----SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVF  174 (213)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTE-----EEEEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             cccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCC-----CceEEEEEeCCHHHHHHHHHHhCCCEECCEEEE
Confidence            478999999999999999999999999999999998743     344999999999999999999999998764333

>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=99.55  E-value=1.4e-14  Score=136.35  Aligned_cols=77  Identities=19%  Similarity=0.217  Sum_probs=66.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +.++|||+|||+++|+++|+++|++||.|++|+|+.++ ++.    ++|||||+|.+.++|++||++|||+.|......|
T Consensus       101 ~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~----~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V  176 (437)
T 3pgw_S          101 AFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGK----PRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLV  176 (437)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCC----ccceEEEeeccHHHHHHHHHHcCCCEECCEEEEE
Confidence            46899999999999999999999999999999999986 433    3449999999999999999999999987644444


Q ss_pred             EE
Q 026648          210 VV  211 (235)
Q Consensus       210 ~~  211 (235)
                      .+
T Consensus       177 ~~  178 (437)
T 3pgw_S          177 DV  178 (437)
T ss_pred             EE
Confidence            33

>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=99.54  E-value=1.9e-14  Score=122.14  Aligned_cols=68  Identities=21%  Similarity=0.275  Sum_probs=61.8

Q ss_pred             CCeEEEcCCC-CCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          132 SSTLFVEGLP-SDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       132 ~~tLfVgNLP-~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      +++|||+||| .++|+++|+++|++||.|.+|+|+.++   + |    ||||+|.+.++|++||+.|||+.+.....
T Consensus         4 ~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~~---~-g----~afV~f~~~~~A~~Ai~~lng~~~~g~~l   72 (205)
T 3tyt_A            4 SPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSK---P-G----AAMVEMADGYAVDRAITHLNNNFMFGQKM   72 (205)
T ss_dssp             CSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTTS---T-T----CEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecCC---C-C----EEEEEECCHHHHHHHHHHhCCCEECCceE
Confidence            6899999999 899999999999999999999998764   2 4    99999999999999999999999886433

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

Probab=99.54  E-value=1.9e-14  Score=119.46  Aligned_cols=76  Identities=14%  Similarity=0.202  Sum_probs=65.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ..++|||+|||.++|+++|+++|++||.|++|+|+.++.   .|.++|||||+|.+.++|++|++.|||..|......+
T Consensus       124 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~---~g~~~g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~V  199 (216)
T 2qfj_A          124 AFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPT---TGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRV  199 (216)
T ss_dssp             TSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHHHHTTCBCSSSBCEE
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCC---CCCcCceEEEEecCHHHHHHHHHHccCCEeCCcEEEE
Confidence            357999999999999999999999999999999999861   1345559999999999999999999999987644333

>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=99.54  E-value=8.6e-15  Score=116.88  Aligned_cols=71  Identities=15%  Similarity=0.299  Sum_probs=61.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHH---hcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDA---LQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~---LnG~~i~~~r  206 (235)
                      +++|||+|||.++|+++|+++|++||.|.+|+|+.++ ++.    ++|||||+|.+.++|++|++.   |+|..|.+.+
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 SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGR----SRGFGFLSFEKPSSVDEVVKTQHILDGKVIDPKR   77 (167)
T ss_dssp             GGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSS----CCSCEEEEESSTHHHHHHHHSCCEETTEECCCEE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCC----ccceEEEEEccHHHHHHHHhcccccCCeEccccc
Confidence            5899999999999999999999999999999999986 433    334999999999999999997   6676666543

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

Probab=99.53  E-value=3.5e-14  Score=105.32  Aligned_cols=67  Identities=16%  Similarity=0.208  Sum_probs=57.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      .++|||+|||.++|+++|+++|++||.|.+|  +.++.  . |.   ||||+|.+.++|++|++ |+|..|.....
T Consensus         8 ~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~--~-g~---~afV~f~~~~~a~~ai~-l~g~~~~g~~l   74 (94)
T 2e5g_A            8 LRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKD--K-GV---FAIVEMGDVGAREAVLS-QSQHSLGGHRL   74 (94)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSS--S-CC---EEEEEESSHHHHHHHHT-CSCCEETTEEC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCC--C-Cc---EEEEEECCHHHHHHHHh-cCCeEECCEEE
Confidence            5799999999999999999999999999987  44431  1 22   99999999999999999 99999886433

>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=99.52  E-value=4.7e-14  Score=112.43  Aligned_cols=69  Identities=20%  Similarity=0.350  Sum_probs=63.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++|||+|||.++++++|+++|++||.|.+++++.++ +    |.++|||||+|.+.++|++|++.|||..+..
T Consensus        89 ~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~----~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  158 (168)
T 1b7f_A           89 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLT----GRPRGVAFVRYNKREEAQEAISALNNVIPEG  158 (168)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTT----CCEEEEEEEEESSHHHHHHHHHHHTTCCCTT
T ss_pred             CCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCC----CCcceEEEEEECCHHHHHHHHHHhcCCEecC
Confidence            5799999999999999999999999999999999987 3    3445599999999999999999999998875

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

Probab=99.52  E-value=2.6e-14  Score=118.57  Aligned_cols=71  Identities=17%  Similarity=0.262  Sum_probs=61.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +++|||+|||.++|+++|+++|++||.|++|+|+.++ ++..+|    ||||+|.+.++|++|++.|+|..+....
T Consensus        28 ~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g----~afV~f~~~~~A~~A~~~l~~~~~~g~~   99 (216)
T 2qfj_A           28 MSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKG----FAFVEYEVPEAAQLALEQMNSVMLGGRN   99 (216)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCS----EEEEEESSHHHHHHHHHHHSSCCCC-CC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccCc----eEEEEeCCHHHHHHHHHHccCCeeCCee
Confidence            5899999999999999999999999999999999887 433334    9999999999999999999998877533

>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=99.52  E-value=2.5e-14  Score=113.42  Aligned_cols=71  Identities=23%  Similarity=0.410  Sum_probs=64.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++|||+|||.++++++|+++|++||.|.+++++.++ +    |.++|||||+|.+.++|++|++.|||..+....
T Consensus        88 ~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~----g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~  159 (167)
T 1fxl_A           88 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVT----GVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGAT  159 (167)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT----CCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCS
T ss_pred             CCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCC----CCccceEEEEeCCHHHHHHHHHHhcCCccCCCc
Confidence            5799999999999999999999999999999999887 3    344559999999999999999999999887643

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

Probab=99.52  E-value=3e-14  Score=116.72  Aligned_cols=131  Identities=16%  Similarity=0.163  Sum_probs=87.5

Q ss_pred             CcCCCCCCCC-CcccCCCCCCCCCCCCccccCCCCCCCCCC-CCcCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHH
Q 026648           73 ISSYSGGQSA-RHMSGGMPSRPVDDPRIVGIGGMDPGPSAK-DRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVA  150 (235)
Q Consensus        73 ~~s~~~g~~~-r~~gGg~~G~~~~~r~~~g~gg~~~~~~~~-~r~~g~~~~~p~~~~ppd~~~tLfVgNLP~~vteedL~  150 (235)
                      |+.|.+.+.+ .++  .++|..+.++.+...-......... ................+...++|||+|||.++++++|+
T Consensus        55 fV~F~~~~~A~~Al--~l~g~~~~g~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~  132 (198)
T 2yh0_A           55 FLEFRSVDETTQAM--AFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVK  132 (198)
T ss_dssp             EEEESCSHHHHHHG--GGTTEEETTEEEEEECCCCCCCCCCSSSCSSCCCTTSSCCCSSCCCCEEEEECCCTTCCHHHHH
T ss_pred             EEEeCCHHHHHHHH--HhcCCEEcCceEEEeCCCCCCCCCCCcCCCcCCCCCCccCCCCCCCCEEEEeCCCCCCCHHHHH
Confidence            6777776554 455  5788877777654322111000000 00000000000111222456899999999999999999


Q ss_pred             HhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          151 HIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       151 ~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ++|++||.|.+|+++.++ +    |.++|||||+|.+.++|++|++.|||..|......+
T Consensus       133 ~~f~~~G~v~~~~~~~~~~~----~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v  188 (198)
T 2yh0_A          133 ELLTSFGPLKAFNLVKDSAT----GLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV  188 (198)
T ss_dssp             HHHHTBSCEEEEEEEECTTT----CSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEE
T ss_pred             HHHHHcCCccEEEEeecCCC----CCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            999999999999999986 3    345559999999999999999999999997544333

>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=99.50  E-value=1.4e-14  Score=122.98  Aligned_cols=69  Identities=14%  Similarity=0.116  Sum_probs=62.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCe--EEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGY--KEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I--~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++++|||+|||+++|+++|+++|++||.|  ++|+++.++++.+     |||||+|.+.++|.+||+.|||+.|..
T Consensus       122 p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~~~~~-----g~gfV~f~~~~~A~~Ai~~lng~~~~g  192 (205)
T 3tyt_A          122 PSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSERS-----SSGLLEWDSKSDALETLGFLNHYQMKN  192 (205)
T ss_dssp             CCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCCSSSS-----EEEEEECSSHHHHHHHHHHHTTCEECC
T ss_pred             CcceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCCCCCc-----eEEEEEeCCHHHHHHHHHHhCCCCccC
Confidence            36899999999999999999999999999  8999998873322     399999999999999999999999876

>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=99.49  E-value=3.3e-14  Score=121.19  Aligned_cols=68  Identities=18%  Similarity=0.222  Sum_probs=62.2

Q ss_pred             CCCeEEEcCCCC-CCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~-~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++++|||+|||. ++++++|+++|++||.|++|+|+.++   + |    ||||+|.+.++|++|++.|||..+....
T Consensus        33 ~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~---~-g----~afV~F~~~~~A~~Ai~~l~g~~~~g~~  101 (229)
T 2adc_A           33 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---K-E----NALVQMADGNQAQLAMSHLNGHKLHGKP  101 (229)
T ss_dssp             CCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT---S-C----CEEEEESCHHHHHHHHHHHTTCBCSSSB
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC---C-C----EEEEEECCHHHHHHHHHHhCCCeECCeE
Confidence            468999999999 99999999999999999999999886   2 4    9999999999999999999999887533

>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=99.49  E-value=6.3e-14  Score=121.82  Aligned_cols=85  Identities=19%  Similarity=0.251  Sum_probs=68.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      .+++|||+|||.++|+++|+++|++||.|.+|+|..++     |    ||||+|.+.++|++|++.|+|..|......+.
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            46899999999999999999999999999999997654     5    99999999999999999999999876443333


Q ss_pred             EEEecccccccCcce
Q 026648          211 VFYQIACEYISDKIC  225 (235)
Q Consensus       211 ~~~~~~~~~~~~~~~  225 (235)
                      + ....+...+.++.
T Consensus        92 ~-a~~~~~l~v~nl~  105 (261)
T 3sde_A           92 F-ATHGAALTVKNLS  105 (261)
T ss_dssp             E-CCCSSEEEEESCC
T ss_pred             e-cccCCcccccCCC
Confidence            3 3323333444443

>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=99.48  E-value=1.7e-13  Score=119.09  Aligned_cols=76  Identities=17%  Similarity=0.180  Sum_probs=64.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHH----HhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVA----HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~----~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++++|||+|||.++|+++|+    ++|++||.|++|+|+.+      |+++|||||+|.+.++|++|++.|||..|..+.
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            46899999999999999977    89999999999998863      233349999999999999999999999988744


Q ss_pred             eceEEE
Q 026648          207 SNLVVF  212 (235)
Q Consensus       207 ~~~~~~  212 (235)
                      ..+.+.
T Consensus        82 l~v~~a   87 (282)
T 3pgw_A           82 MRIQYA   87 (282)
T ss_pred             EEEEEe
Confidence            444443

>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=99.47  E-value=1.1e-13  Score=113.21  Aligned_cols=73  Identities=14%  Similarity=0.220  Sum_probs=63.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .++|||+|||.++|+++|+++|++||.|++|+|+.++ +    |.++|||||+|.+.++|++|++. +|..|......+
T Consensus       104 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~----g~~~g~afV~F~~~~~A~~A~~~-~~~~~~G~~i~v  177 (196)
T 1l3k_A          104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS----GKKRGFAFVTFDDHDSVDKIVIQ-KYHTVNGHNCEV  177 (196)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTT----CCEEEEEEEEESSHHHHHHHHHC-SCCEETTEECEE
T ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCC----CCccceEEEEECCHHHHHHHHHh-CCcEECCEEEEE
Confidence            5899999999999999999999999999999999986 3    34556999999999999999987 788777543333

>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=99.47  E-value=6.3e-13  Score=115.50  Aligned_cols=65  Identities=35%  Similarity=0.588  Sum_probs=60.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      ++++|||+|||.++|+++|+++|++||.|++|+|+.++    +|    ||||+|.+.++|++|++.|||+.+.
T Consensus       206 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~~----~g----~afV~f~~~~~A~~A~~~l~g~~~~  270 (282)
T 3pgw_A          206 PNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR----HD----IAFVEFDNEVQAGAARDALQGFKIT  270 (282)
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecCC----Cc----EEEEEeCCHHHHHHHHHHcCCcEeC
Confidence            46899999999999999999999999999999999765    24    9999999999999999999999998

>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=99.46  E-value=1.3e-13  Score=100.86  Aligned_cols=66  Identities=24%  Similarity=0.302  Sum_probs=54.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +++|||+|||.++|+++|+++|++||.|++|+|+.+    .+|    ||||+|.+.++|++    +++..+......+
T Consensus         5 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~----~~g----~afV~f~~~~~a~~----~~~~~~~~~g~~l   70 (88)
T 1wf0_A            5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP----FRA----FAFVTFADDQIAQS----LCGEDLIIKGISV   70 (88)
T ss_dssp             CCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS----CCS----CCEEECSCHHHHHH----TTTCEEEETTEEE
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC----CCC----EEEEEECCHHHHHH----HhcCCceeCCEEE
Confidence            589999999999999999999999999999999865    224    99999999999974    4666554433333

>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=99.45  E-value=4.9e-14  Score=112.44  Aligned_cols=69  Identities=16%  Similarity=0.212  Sum_probs=61.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .++|||+|||.++|+++|+++|++||.|.+|+++.++ +    |.++|||||+|.+.++|++|++ ++|..+...
T Consensus        87 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~----g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~  156 (167)
T 2cjk_A           87 TGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDT----GQSRGFGFVTYDSADAVDRVCQ-NKFIDFKDR  156 (167)
T ss_dssp             CEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSS----STTSEEEEEEESSHHHHHHHHH-CSEECSSSS
T ss_pred             CCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCC----CccceEEEEEECCHHHHHHHHh-CCCEEeCCe
Confidence            5799999999999999999999999999999999986 3    3444599999999999999998 788777653

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

Probab=99.45  E-value=8.4e-14  Score=122.23  Aligned_cols=63  Identities=24%  Similarity=0.369  Sum_probs=59.3

Q ss_pred             CCCeEEEcCCCCCC---------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCce
Q 026648          131 ASSTLFVEGLPSDC---------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQS  201 (235)
Q Consensus       131 ~~~tLfVgNLP~~v---------teedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~  201 (235)
                      .++||||+|||.++         +|++|+++|++||.|++|+|+..+     |    ||||+|.+.++|+.|+++|+|..
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            36899999999998         799999999999999999999764     5    99999999999999999999999


Q ss_pred             E
Q 026648          202 N  202 (235)
Q Consensus       202 i  202 (235)
                      |
T Consensus       204 l  204 (240)
T 3u1l_A          204 L  204 (240)
T ss_dssp             C
T ss_pred             E
Confidence            9

>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=99.44  E-value=2.1e-13  Score=114.90  Aligned_cols=68  Identities=13%  Similarity=0.136  Sum_probs=59.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++|||+|||+++|+++|+++|++||.|.+|+|+.+++    |.++|||||+|++.++|++|++.++ ..+..
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~----~~~kG~aFVeF~~~e~A~~A~~~~~-~~~~G  176 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH----KAFKGSIFVVFDSIESAKKFVETPG-QKYKE  176 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT----CCEEEEEEEEESSHHHHHHHHHCTT-CEETT
T ss_pred             cCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCC----CCcccEEEEEECCHHHHHHHHHhCC-CeECC
Confidence            47999999999999999999999999999999999874    3455699999999999999998765 45554

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.43  E-value=2.5e-13  Score=103.87  Aligned_cols=77  Identities=16%  Similarity=0.198  Sum_probs=61.4

Q ss_pred             CCe-EEEcCCCCCCCHHH----HHHhhcCC-CCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SST-LFVEGLPSDCSRRE----VAHIFRPF-VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~t-LfVgNLP~~vteed----L~~lF~~f-G~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +.| |||+|||+.+++++    |+++|++| |.|.+|.         +|    ||||+|.+.++|++|++.|||+.+.. 
T Consensus         8 ~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~Vt---------gG----~AfV~F~~~esA~~A~~~l~G~~l~g-   73 (96)
T 2diu_A            8 CHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSIT---------GC----SAILRFINQDSAERAQKRMENEDVFG-   73 (96)
T ss_dssp             SSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECC---------TT----CEEEEESSHHHHHHHHHHHTTCCSSS-
T ss_pred             cceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEe---------cC----EEEEEECCHHHHHHHHHHhcCCccCC-
Confidence            456 99999999999998    55899999 5999981         15    99999999999999999999999885 


Q ss_pred             eeceEEEEecccccccC
Q 026648          206 LSNLVVFYQIACEYISD  222 (235)
Q Consensus       206 r~~~~~~~~~~~~~~~~  222 (235)
                      |...+-++..+...++.
T Consensus        74 r~i~v~~A~~~sd~~~~   90 (96)
T 2diu_A           74 NRIIVSFTPKNRELCET   90 (96)
T ss_dssp             SCCEEESSCCSCCCCCC
T ss_pred             ceEEEEecCCCcceeEe
Confidence            44444455545555443

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.43  E-value=2.8e-13  Score=109.25  Aligned_cols=107  Identities=14%  Similarity=0.147  Sum_probs=75.7

Q ss_pred             CcCCCCCCCC-CcccCCCCCCCCCCCCccccCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHH
Q 026648           73 ISSYSGGQSA-RHMSGGMPSRPVDDPRIVGIGGMDPGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAH  151 (235)
Q Consensus        73 ~~s~~~g~~~-r~~gGg~~G~~~~~r~~~g~gg~~~~~~~~~r~~g~~~~~p~~~~ppd~~~tLfVgNLP~~vteedL~~  151 (235)
                      |+.|.+.+.+ .++  .++|..+.++.+...-...                 .........++|||+|||.++|+++|++
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            6667665444 455  3777777776553321111                 0011122368999999999999999999


Q ss_pred             hhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          152 IFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       152 lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +|++||.|..+    ...+    .++|||||+|.+.++|++|++.|||..|....
T Consensus       119 ~F~~~g~v~~~----~~~~----~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~  165 (175)
T 1fje_B          119 VFEDALEIRLV----SQDG----KSKGIAYIEFKSEADAEKNLEEKQGAEIDGRS  165 (175)
T ss_dssp             HCTTCSEEEEE----CSSS----SCCSEEEEECSSHHHHHHHHHHHTEEEETTEE
T ss_pred             HHHhcCeEEEe----cCCC----CCceEEEEEECCHHHHHHHHHHhCCCEECCeE
Confidence            99999977655    3332    23339999999999999999999999888643

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

Probab=99.43  E-value=1e-13  Score=111.89  Aligned_cols=74  Identities=12%  Similarity=0.158  Sum_probs=63.0

Q ss_pred             CeEEEcCC----CCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecC----HHH----HHHHHH--Hh
Q 026648          133 STLFVEGL----PSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVS----PAH----AATAMD--AL  197 (235)
Q Consensus       133 ~tLfVgNL----P~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s----~~~----A~~Ai~--~L  197 (235)
                      ++|||+||    |+.+++.+|+++|++||.|.+|+++.|+ +    |.|+|||||+|.+    +++    |.+|++  .|
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~T----g~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~l   78 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNS----ALPLHVYLIKYASSDGKINDAAKAAFSAVRKHES   78 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTT----CCEEEEEEEECC------CCHHHHHHHHHHHTTT
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC----CceeeEEEEEECCCCCCcchHHHHHHHHHHHhhh
Confidence            68999999    9999999999999999999999999999 4    5667799999996    433    788988  78


Q ss_pred             cCceEeeeeeceE
Q 026648          198 QGQSNIICLSNLV  210 (235)
Q Consensus       198 nG~~i~~~r~~~~  210 (235)
                      +|..|+.+...+.
T Consensus        79 ng~~I~Gr~irV~   91 (136)
T 2j8a_A           79 SGCFIMGFKFEVI   91 (136)
T ss_dssp             TCEEETTEEEEEE
T ss_pred             cCCeecCcEEEEE
Confidence            9999997555443

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.43  E-value=6.8e-13  Score=101.96  Aligned_cols=82  Identities=12%  Similarity=0.129  Sum_probs=66.0

Q ss_pred             CCCeEEEcCCCC-----CCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPS-----DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~-----~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ++++|+|+||..     +-++++|+++|++||.|++|+|+.++..  +++++|||||+|.+.++|++|++.|||..+.. 
T Consensus         7 ~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~--~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~G-   83 (105)
T 2pe8_A            7 PTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGA--PDDEAVRIFLEFERVESAIKAVVDLNGRYFGG-   83 (105)
T ss_dssp             CCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSC--CTTTSEEEEEEESSHHHHHHHHHHHTTCEETT-
T ss_pred             CCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCC--CCCCcEEEEEEECCHHHHHHHHHHHCCCEECC-
Confidence            478999999963     3479999999999999999999988621  12345599999999999999999999999874 


Q ss_pred             eeceEEEEec
Q 026648          206 LSNLVVFYQI  215 (235)
Q Consensus       206 r~~~~~~~~~  215 (235)
                      |...+.+++.
T Consensus        84 r~i~v~~a~~   93 (105)
T 2pe8_A           84 RVVKACFYNL   93 (105)
T ss_dssp             EECEEEECCH
T ss_pred             cEEEEEEcCH
Confidence            5555666653

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

Probab=99.42  E-value=1.6e-13  Score=113.19  Aligned_cols=70  Identities=17%  Similarity=0.220  Sum_probs=62.6

Q ss_pred             CCeEEEcCCCC-CCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~-~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +++|||+|||. ++++++|+++|++||.|.+|+++.++   + |    ||||+|.+.++|++|++.|||..+......+
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~---~-g----~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v   73 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---K-E----NALVQMADGNQAQLAMSHLNGHKLHGKPIRI   73 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC---S-S----CCEEECTTTHHHHHHHHHHTTCCCSSCCCEE
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC---C-C----EEEEEECCHHHHHHHHHHhCCCeecCeEEEE
Confidence            57999999999 99999999999999999999999876   2 4    9999999999999999999999887543333

>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=2.6e-13  Score=124.76  Aligned_cols=65  Identities=15%  Similarity=0.238  Sum_probs=58.7

Q ss_pred             CCCCeEEEcC--CCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          130 DASSTLFVEG--LPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       130 d~~~tLfVgN--LP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      .++++|||+|  |++++||++|+++|++||.|++|+++.+|     |    ||||+|++.++|++||++|||..+.
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            3478999999  68999999999999999999999887532     5    9999999999999999999999984

>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=99.41  E-value=4.5e-13  Score=116.50  Aligned_cols=79  Identities=16%  Similarity=0.135  Sum_probs=66.9

Q ss_pred             CCCeEEEcCCCCCC-CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDC-SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~v-teedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ..++|||+|||.++ |+++|+++|++||.|.+|+|+.+++    |.++|||||+|.+.++|.+|++.|||..+.... ..
T Consensus       183 ~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~-l~  257 (284)
T 3smz_A          183 HSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQD----GQLKGFAVLEYETAEMAEEAQQQADGLSLGGSH-LR  257 (284)
T ss_dssp             SCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECSS----CCEEEEEEEECSSHHHHHHHHHHHTTCEETTEE-CE
T ss_pred             CccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECCC----CCcccEEEEEeCCHHHHHHHHHHhCCCccCCeE-EE
Confidence            36899999999995 9999999999999999999999874    344559999999999999999999999997543 33


Q ss_pred             EEEEe
Q 026648          210 VVFYQ  214 (235)
Q Consensus       210 ~~~~~  214 (235)
                      +.+++
T Consensus       258 v~~a~  262 (284)
T 3smz_A          258 VSFCA  262 (284)
T ss_dssp             EEECC
T ss_pred             EEEec
Confidence            33433

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

Probab=99.38  E-value=8e-13  Score=108.95  Aligned_cols=72  Identities=18%  Similarity=0.200  Sum_probs=62.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG-~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ++++|||+|||.++++++|+++|++|| .|.+|+++.+.   + |    ||||+|.+.++|++|++.|||..+...+...
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---R-K----MALIQMGSVEEAVQALIDLHNHDLGENHHLR  190 (198)
T ss_dssp             CCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESSTT---S-S----CEEEECSSHHHHHHHHHHHTSSCCSSCCSCC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeCC---C-c----EEEEEeCCHHHHHHHHHHhcCCccCCCCeEE
Confidence            368999999999999999999999999 99999997653   2 4    9999999999999999999999997333333


Q ss_pred             E
Q 026648          210 V  210 (235)
Q Consensus       210 ~  210 (235)
                      +
T Consensus       191 v  191 (198)
T 1qm9_A          191 V  191 (198)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.38  E-value=7.4e-13  Score=115.05  Aligned_cols=69  Identities=19%  Similarity=0.264  Sum_probs=61.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +++|||+|||.++|+++|+++|++||.|.+|+|+.+++    |.++|||||+|.+.++|.+|++.||+..+..
T Consensus        96 ~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~----g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~  164 (261)
T 3sde_A           96 GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDR----GRATGKGFVEFAAKPPARKALERCGDGAFLL  164 (261)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETT----SCEEEEEEEEESSHHHHHHHHHHHHHSCEES
T ss_pred             CCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCC----CCcCcEEEEEeCCHHHHHHHHHHhcCCeEEe
Confidence            46999999999999999999999999999999999964    3455599999999999999999996655553

>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=99.37  E-value=1.1e-13  Score=111.52  Aligned_cols=76  Identities=18%  Similarity=0.229  Sum_probs=58.7

Q ss_pred             CCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       129 pd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      +...++|||+|||.++|+++|+++|++||.+..+.+...+.+..+|    ||||+|.+.++|++|+ .|+|..+......
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g----~afV~f~~~~~a~~A~-~l~g~~~~g~~l~   84 (175)
T 1fje_B           10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRK----FGYVDFESAEDLEKAL-ELTGLKVFGNEIK   84 (175)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTT----EEEEEESSHHHHHHHH-HGGGEEETTEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEECCCCcccc----EEEEEECCHHHHHHHH-hcCCCEeCCeEEE
Confidence            3446899999999999999999999999987663322222322334    9999999999999999 5999988854333


Q ss_pred             e
Q 026648          209 L  209 (235)
Q Consensus       209 ~  209 (235)
                      +
T Consensus        85 v   85 (175)
T 1fje_B           85 L   85 (175)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.37  E-value=6.6e-13  Score=115.91  Aligned_cols=73  Identities=10%  Similarity=0.109  Sum_probs=62.9

Q ss_pred             CCCeEEEcCCCCC-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~-vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..++|||+|||.+ +|+++|+++|++||.|.+|+|+.+...  .|.++|||||+|.+.++|++|+ .|||..|....
T Consensus       209 ~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~--tg~~~g~afV~F~~~~~A~~A~-~l~g~~~~g~~  282 (292)
T 2ghp_A          209 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKE--HSFNNCCAFMVFENKDSAERAL-QMNRSLLGNRE  282 (292)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC-----CCCEEEEEEESSHHHHHHHG-GGTTEEETTEE
T ss_pred             CCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCc--CCCCceEEEEEeCCHHHHHHHH-HhcCCEECCcE
Confidence            4689999999999 999999999999999999999988640  1234459999999999999999 99999887533

>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=99.36  E-value=7.2e-13  Score=106.10  Aligned_cols=68  Identities=18%  Similarity=0.256  Sum_probs=59.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCC----C-------CeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPF----V-------GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~f----G-------~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      +++|||+|||.++|+++|+++|++|    |       .|.++++..++     |    ||||+|.++++|++|+ .|+|.
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            5899999999999999999999999    6       78888877553     5    9999999999999999 89999


Q ss_pred             eEeeeeece
Q 026648          201 SNIICLSNL  209 (235)
Q Consensus       201 ~i~~~r~~~  209 (235)
                      .+......+
T Consensus        74 ~~~g~~i~v   82 (172)
T 2g4b_A           74 IFQGQSLKI   82 (172)
T ss_dssp             EETTEECEE
T ss_pred             EecCceeee
Confidence            887644333

>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A

Probab=99.36  E-value=1.8e-12  Score=99.53  Aligned_cols=82  Identities=15%  Similarity=0.119  Sum_probs=65.5

Q ss_pred             CCeEEEcCC--CCCCC--------HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCce
Q 026648          132 SSTLFVEGL--PSDCS--------RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQS  201 (235)
Q Consensus       132 ~~tLfVgNL--P~~vt--------eedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~  201 (235)
                      ++.|.+.|+  |.++.        ++||+++|++||.|++|+|+.++.... +.++||+||+|.+.++|++|+++|||..
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            679999998  44443        468999999999999999998873211 1234499999999999999999999998


Q ss_pred             EeeeeeceEEEEec
Q 026648          202 NIICLSNLVVFYQI  215 (235)
Q Consensus       202 i~~~r~~~~~~~~~  215 (235)
                      +.. |...|.+++.
T Consensus        84 f~G-R~i~v~~~~~   96 (105)
T 3v4m_A           84 FAN-RVVVTKYCDP   96 (105)
T ss_dssp             ETT-EECEEEEECH
T ss_pred             eCC-CEEEEEEeCH
Confidence            874 6666777763

>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=99.36  E-value=3.3e-12  Score=98.04  Aligned_cols=76  Identities=14%  Similarity=0.191  Sum_probs=60.5

Q ss_pred             CCCeEEEcCCCCCCC-----------HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcC
Q 026648          131 ASSTLFVEGLPSDCS-----------RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQG  199 (235)
Q Consensus       131 ~~~tLfVgNLP~~vt-----------eedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG  199 (235)
                      ++++|+|.||.....           +++|+++|++||.|++|.| .++.  .+|    ||||+|.+.++|++|++.|||
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--PDG----VASVSFRDPEEADYCIQTLDG   86 (112)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE-ETTC--TTC----EEEEECSCHHHHHHHHHHSTT
T ss_pred             CceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE-ecCC--CCE----EEEEEECCHHHHHHHHHHcCC
Confidence            478999999944432           6899999999999999966 4542  334    999999999999999999999


Q ss_pred             ceEeeeeeceEEEEe
Q 026648          200 QSNIICLSNLVVFYQ  214 (235)
Q Consensus       200 ~~i~~~r~~~~~~~~  214 (235)
                      ..+.. +...+.+++
T Consensus        87 ~~~~g-r~l~v~~a~  100 (112)
T 2dit_A           87 RWFGG-RQITAQAWD  100 (112)
T ss_dssp             CEETT-EECEEEECC
T ss_pred             CEECC-cEEEEEEeC
Confidence            99874 444454544

>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=99.36  E-value=1.8e-12  Score=112.64  Aligned_cols=70  Identities=24%  Similarity=0.347  Sum_probs=63.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .++|||+|||.++|+++|+++|++||.|.+++++.++ +    |.++|||||+|.+.++|++|++.|+|..+...
T Consensus        95 ~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~----g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~  165 (284)
T 3smz_A           95 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERT----GQSKGYGFAEYMKKDSAARAKSDLLGKPLGPR  165 (284)
T ss_dssp             SCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTT----CCEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCC----CccceEEEEEECCHHHHHHHHHHhCCCEeCCc
Confidence            4799999999999999999999999999999999886 3    44556999999999999999999999988753

>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=99.36  E-value=1.7e-12  Score=110.51  Aligned_cols=65  Identities=18%  Similarity=0.264  Sum_probs=59.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG-~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      ++++|||+|||.++++++|+++|++|| .|.+|+++.+.   + |    ||||+|.+.++|++|++.|||..+.
T Consensus       150 ~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~---~-g----~afV~f~~~~~A~~Ai~~l~g~~~~  215 (229)
T 2adc_A          150 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD---R-K----MALIQMGSVEEAVQALIDLHNHDLG  215 (229)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSS---T-T----CEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEECC---C-c----EEEEEECCHHHHHHHHHHHCCCccC
Confidence            368999999999999999999999999 99999997642   2 4    9999999999999999999999987

>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=99.34  E-value=1.8e-12  Score=113.21  Aligned_cols=75  Identities=16%  Similarity=0.221  Sum_probs=61.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCC-CeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFV-GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG-~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      .++|||+|||.++++++|+++|++|| .|.+|+|+.++.+...|    ||||+|.+.++|++|++.|+|..+......+.
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 ECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRR----FAYIDVTSKEDARYCVEKLNGLKIEGYTLVTK  192 (292)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CC----EEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcce----EEEEEECCHHHHHHHHHHhCCCEeCCcEEEEE
Confidence            57999999999999999999999999 99999999887433334    99999999999999999999999976443333

>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=99.32  E-value=7.9e-12  Score=98.21  Aligned_cols=84  Identities=17%  Similarity=0.235  Sum_probs=67.4

Q ss_pred             CCCeEEEcCCC--C---CCCHHHHHHhhcCCCCeEEEEEeeCCC-CCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLP--S---DCSRREVAHIFRPFVGYKEVRLVSKES-RHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP--~---~vteedL~~lF~~fG~I~~vrl~~dk~-~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++++|++.|+-  .   +-.++||++.|++||.|.+|+|+.++. ....+.++||+||+|.+.++|++|++.|||..+. 
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~-   97 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFA-   97 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEET-
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEEC-
Confidence            36899999993  2   224789999999999999999998862 1112345569999999999999999999999887 


Q ss_pred             eeeceEEEEec
Q 026648          205 CLSNLVVFYQI  215 (235)
Q Consensus       205 ~r~~~~~~~~~  215 (235)
                      .|...|.+++.
T Consensus        98 GR~i~v~~~~~  108 (118)
T 3ue2_A           98 GRKVVAEVYDQ  108 (118)
T ss_dssp             TEECEEEEECH
T ss_pred             CcEEEEEEcCh
Confidence            46677777774

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

Probab=99.30  E-value=2.3e-12  Score=105.41  Aligned_cols=68  Identities=18%  Similarity=0.256  Sum_probs=57.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCC----C-------CeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPF----V-------GYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~f----G-------~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      +++|||+|||.++|+++|+++|++|    |       .|.++++...+     |    ||||+|.+.++|++|+ .|||.
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 ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDK-----N----FAFLEFRSVDETTQAM-AFDGI   73 (198)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEETTT-----T----EEEEEESCSHHHHHHG-GGTTE
T ss_pred             eeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecCCC-----C----EEEEEeCCHHHHHHHH-HhcCC
Confidence            5899999999999999999999999    5       67777765443     5    9999999999999999 89999


Q ss_pred             eEeeeeece
Q 026648          201 SNIICLSNL  209 (235)
Q Consensus       201 ~i~~~r~~~  209 (235)
                      .+......+
T Consensus        74 ~~~g~~i~v   82 (198)
T 2yh0_A           74 IFQGQSLKI   82 (198)
T ss_dssp             EETTEEEEE
T ss_pred             EEcCceEEE
Confidence            887644333

>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=99.20  E-value=5.1e-12  Score=96.69  Aligned_cols=65  Identities=17%  Similarity=0.148  Sum_probs=55.0

Q ss_pred             EEcCCCCCCCHHHHHHhh------------cCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          136 FVEGLPSDCSRREVAHIF------------RPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       136 fVgNLP~~vteedL~~lF------------~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      .+.|||.++++++|++.|            ++||.|++|+|+.++.    |+++|||||+|.++++|++|++.|||..+.
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            467888888888887776            9999999999998764    345569999999999999999999999887


Q ss_pred             e
Q 026648          204 I  204 (235)
Q Consensus       204 ~  204 (235)
                      .
T Consensus        95 G   95 (104)
T 1jmt_A           95 G   95 (104)
T ss_dssp             T
T ss_pred             C
Confidence            5

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

Probab=99.07  E-value=4.6e-10  Score=89.05  Aligned_cols=66  Identities=14%  Similarity=0.075  Sum_probs=58.2

Q ss_pred             CCeEEEcCCCCC-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecC-HHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVS-PAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~-vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s-~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +..|||+||+.+ +++++|+++|++||.|+.|.++.+..         .|||+|.+ ..+|++|+++|+.-.+.++.
T Consensus        18 G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~---------tgfVrf~~~~~~A~~av~~ln~~~~~i~g   85 (121)
T 1owx_A           18 GCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAK---------EGIILFKEKAKEALGKAKDANNGNLQLRN   85 (121)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCS---------EEEEEESSCHHHHHHHHHHTTTSCBCTTS
T ss_pred             CeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCC---------EEEEEECCChHHHHHHHHHhhcCCcEEeC
Confidence            689999999999 99999999999999999999998863         79999999 89999999999744444433

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.06  E-value=4.8e-10  Score=85.60  Aligned_cols=61  Identities=16%  Similarity=0.178  Sum_probs=50.3

Q ss_pred             CCeEEEcCCC-------CCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          132 SSTLFVEGLP-------SDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       132 ~~tLfVgNLP-------~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      .++|-|.-..       .++++++|+++|++||.|++|+|+.    .++|    ||||+|++.++|++|++.+++.
T Consensus        10 ~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~v~i~~----~~rG----faFVeF~~~~~A~~Ai~~~~~~   77 (100)
T 2d9o_A           10 TPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLSS----KKPG----TAVVEFATVKAAELAVQNEVGL   77 (100)
T ss_dssp             SCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEEEEEES----SSSS----EEEEEESCHHHHHHHHHTCCBC
T ss_pred             cceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEEEEEcc----CCCC----EEEEEECCHHHHHHHHHhcCCC
Confidence            3467776554       5699999999999999999999983    1234    9999999999999999987664

>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=99.05  E-value=1.2e-09  Score=85.30  Aligned_cols=78  Identities=17%  Similarity=0.127  Sum_probs=61.0

Q ss_pred             CCCCCeEEEcCCCCCC----------CHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhc
Q 026648          129 PDASSTLFVEGLPSDC----------SRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (235)
Q Consensus       129 pd~~~tLfVgNLP~~v----------teedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln  198 (235)
                      |-+++.|.+.|+=..-          .++||++.|++||.|++|+|..+.   ..|    |+||+|.+.++|++|++.||
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---AQG----NVYVKCPSIAAAIAAVNALH   76 (114)
T ss_dssp             CCCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC---TTC----CEEEECSSHHHHHHHHHHHT
T ss_pred             CCCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCC---CcE----EEEEEECCHHHHHHHHHHhC
Confidence            3347889999983221          245789999999999999987654   234    99999999999999999999


Q ss_pred             CceEeeeeeceEEEEe
Q 026648          199 GQSNIICLSNLVVFYQ  214 (235)
Q Consensus       199 G~~i~~~r~~~~~~~~  214 (235)
                      |..+.. |...+-+++
T Consensus        77 G~~f~G-R~i~v~~~~   91 (114)
T 3s6e_A           77 GRWFAG-KMITAAYVP   91 (114)
T ss_dssp             TCEETT-EECEEEEEC
T ss_pred             CCEECC-EEEEEEEEc
Confidence            998874 555555654

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.78  E-value=9.1e-09  Score=77.82  Aligned_cols=69  Identities=19%  Similarity=0.247  Sum_probs=57.0

Q ss_pred             CeEEEcCCCC----CCCH----HHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          133 STLFVEGLPS----DCSR----REVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       133 ~tLfVgNLP~----~vte----edL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .||+|.-+|.    +.-.    .+|.+.|++||.|..+|++.++           +||+|.+.+.|.+||+ |||+++..
T Consensus         8 ~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d~-----------~fVtF~d~~sAlaAi~-mnG~~v~G   75 (91)
T 2dnr_A            8 GTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVEDK-----------MWVTFLEGSSALNVLS-LNGKELLN   75 (91)
T ss_dssp             CEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSSS-----------EEEEESSHHHHHHGGG-GTTCEETT
T ss_pred             CeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecCC-----------EEEEECChHHHHHHHh-cCCeEeCC
Confidence            5899988772    3334    5789999999999999999874           7999999999999999 99999887


Q ss_pred             eeeceEEEE
Q 026648          205 CLSNLVVFY  213 (235)
Q Consensus       205 ~r~~~~~~~  213 (235)
                      +...+.+..
T Consensus        76 r~LkV~lkt   84 (91)
T 2dnr_A           76 RTITIALKS   84 (91)
T ss_dssp             EEEEEEECC
T ss_pred             eEEEEEeCC
Confidence            666555543

>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=98.71  E-value=2.5e-08  Score=84.19  Aligned_cols=74  Identities=18%  Similarity=0.213  Sum_probs=59.8

Q ss_pred             CCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEEEEecc
Q 026648          142 SDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVFYQIA  216 (235)
Q Consensus       142 ~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~~~~~~  216 (235)
                      .+-.+++|++.|++||.|.+|+|+.+. +....|.++|++||+|.+.++|++|++.|||..+.. |...+.+++.+
T Consensus       139 ~~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~g-r~i~~~~~~~~  213 (222)
T 3dxb_A          139 DDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAG-RKVVAEVYDQE  213 (222)
T ss_dssp             CTTHHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSS-SBCEEEECCHH
T ss_pred             HHHHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECC-eEEEEEEcCHH
Confidence            345678999999999999999998765 333334667799999999999999999999998774 66667777643

>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=98.57  E-value=3.6e-08  Score=75.04  Aligned_cols=64  Identities=16%  Similarity=0.144  Sum_probs=53.9

Q ss_pred             CeEEEcCCCCC-----CCH----HHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          133 STLFVEGLPSD-----CSR----REVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       133 ~tLfVgNLP~~-----vte----edL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      .||+|.-++.+     .-.    .+|.+.|++||.|..+|++.++           +||+|.+.+.|.+||+ |+|++|.
T Consensus        16 ~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~-----------~fVtF~d~~sAl~AI~-ldG~~v~   83 (95)
T 1ufw_A           16 ATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ-----------MLVTFADSHSALSVLD-VDGMKVK   83 (95)
T ss_dssp             CEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE-----------EEEECSCSHHHHHHHH-GGGSEET
T ss_pred             CeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc-----------EEEEEcChHHHHHHHh-cCCeeeC
Confidence            59999998743     222    4688999999999999999985           7999999999999999 9999998


Q ss_pred             eeeec
Q 026648          204 ICLSN  208 (235)
Q Consensus       204 ~~r~~  208 (235)
                      .+...
T Consensus        84 Gr~L~   88 (95)
T 1ufw_A           84 GRAVK   88 (95)
T ss_dssp             TEEEE
T ss_pred             CeEEE
Confidence            65443

>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=4.4e-05  Score=58.35  Aligned_cols=56  Identities=16%  Similarity=0.397  Sum_probs=49.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhc
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln  198 (235)
                      ....++| ++|.+....||.++|++||+| .|+.+.|.          -|||.|.+++.|..|+..+.
T Consensus        15 r~HVf~l-~FP~ewKt~DI~~lFs~fggv-~I~WidDT----------sAlvvf~~~~~a~~al~~i~   70 (100)
T 1whv_A           15 RDHVLHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDDT----------SAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CCSEEEE-ECCTTCCHHHHHHHHTTTCSC-CCEEEETT----------EEEEECSCHHHHHHHHHHHH
T ss_pred             CCeEEEE-eCChhhhhHHHHHHhhccCCE-EEEEEcCC----------eEEEEecCHHHHHHHHHhcc
Confidence            3466777 999999999999999999964 78888875          89999999999999999874

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.83  E-value=5.2e-05  Score=59.26  Aligned_cols=70  Identities=14%  Similarity=0.058  Sum_probs=62.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCC-----CCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPF-----VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~f-----G~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++|=+=|||..+++..|+.|.+++     |.|+++.|++|.+         =|+|+|.+...|.+|.-+|+|+++.. |
T Consensus        21 ~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH~---------GAivef~d~~~AgKasLaL~G~ef~g-r   90 (117)
T 2l9w_A           21 ETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDFN---------GAIIIFRDSKFAAKMLMILNGSQFQG-K   90 (117)
T ss_dssp             TSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTTT---------EEEEECSCHHHHHHHHHHHSSEEETT-E
T ss_pred             CcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCCC---------ceEEEEccchhhHHHHhhcCCeeecC-e
Confidence            4789999999999999999999999     9999999999973         49999999999999999999999994 4


Q ss_pred             eceEE
Q 026648          207 SNLVV  211 (235)
Q Consensus       207 ~~~~~  211 (235)
                      .+.|.
T Consensus        91 ~Lr~g   95 (117)
T 2l9w_A           91 VIRSG   95 (117)
T ss_dssp             EEEEE
T ss_pred             EEEec
Confidence            44444

>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=97.26  E-value=0.0014  Score=49.17  Aligned_cols=70  Identities=11%  Similarity=0.210  Sum_probs=57.5

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCC-CceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGD-PLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~-~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++|.|++||+..||+++.+.++....+.-...+..+...  +. .-.-|+|.|.+.+++..-.+.++|+.+..
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~--~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D   72 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSL--YPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSS--TTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCC--CCCcceEEEEEeCCHHHHHHHHHHhCCcEEEc
Confidence            589999999999999999999999988877877776111  11 11368999999999999999999997664

>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=97.03  E-value=0.0009  Score=51.17  Aligned_cols=54  Identities=17%  Similarity=0.402  Sum_probs=47.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhc
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln  198 (235)
                      ..|+| ++|.+....||.++|++||+ ..|+.+.|.          -|||.|.+++.|..|+..+.
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 478888875          89999999999999999875

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.91  E-value=0.0031  Score=48.46  Aligned_cols=62  Identities=18%  Similarity=0.186  Sum_probs=50.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCC-----CCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHH----hcCceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPF-----VGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA----LQGQSN  202 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~f-----G~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~----LnG~~i  202 (235)
                      .++|.|.|||.++.++.|+-.|+.-     |.|.+|.... .          -|+|+|.+.+.|++.++.    |+|+.|
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 GVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG-C----------GGVLTFREPADAERVLAQADHELHGAQL   76 (104)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET-T----------EEEEEESSHHHHHHHHTCSCCBSSSSBC
T ss_pred             ccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC-C----------cEEEEEcChHHHHHHhcCCcceecCeEE
Confidence            4799999999999999999999872     5677776654 1          689999999999999876    666555


Q ss_pred             ee
Q 026648          203 II  204 (235)
Q Consensus       203 ~~  204 (235)
                      .+
T Consensus        77 sV   78 (104)
T 2dhx_A           77 SL   78 (104)
T ss_dssp             EE
T ss_pred             EE
Confidence            54

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=96.62  E-value=0.0025  Score=49.06  Aligned_cols=72  Identities=21%  Similarity=0.155  Sum_probs=56.8

Q ss_pred             CeEEEcCCCCCC-C----HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          133 STLFVEGLPSDC-S----RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       133 ~tLfVgNLP~~v-t----eedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      ++|+|.||+.++ +    .+.++.||..|+++......+.-.         =..|.|.++++|.+|...|+++.+...+ 
T Consensus         6 ntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSFR---------Rirv~F~~~~~A~~AR~~Lh~~~f~g~~-   75 (104)
T 1wey_A            6 SGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFK---------RVRINFSNPLSAADARLRLHKTEFLGKE-   75 (104)
T ss_dssp             CEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTTT---------EEEEECSSTTHHHHHHHTSTTSEETTEE-
T ss_pred             ceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcce---------EEEEEeCChHHHHHHHHHhccceecCce-
Confidence            699999999876 3    256789999999988876665542         2579999999999999999999988653 


Q ss_pred             ceEEEEe
Q 026648          208 NLVVFYQ  214 (235)
Q Consensus       208 ~~~~~~~  214 (235)
                      .-|-|.|
T Consensus        76 ~r~YFgq   82 (104)
T 1wey_A           76 MKLYFAQ   82 (104)
T ss_dssp             CEEECCC
T ss_pred             eEEEecC
Confidence            3344555

>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=96.57  E-value=0.0058  Score=48.01  Aligned_cols=71  Identities=13%  Similarity=0.075  Sum_probs=54.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      .+.|-|=+.|... -..|-+.|++||.|++......  .   .    +-.|.|.++.+|++||.. ||..|.....--|.
T Consensus        24 ~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~~~~--~---N----WihI~Y~s~~~A~rAL~k-NG~ii~g~~mIGV~   92 (119)
T 1wwh_A           24 DTWVTVFGFPQAS-ASYILLQFAQYGNILKHVMSNT--G---N----WMHIRYQSKLQARKALSK-DGRIFGESIMIGVK   92 (119)
T ss_dssp             GGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEECSS--S---S----EEEEEESSHHHHHHHHTT-TTCEETTTEECEEE
T ss_pred             CCEEEEECCCHHH-HHHHHHHHHhhCcEEEeccCCC--C---C----eEEEEeCCHHHHHHHHHh-CCeEecCCEEEEEE
Confidence            5789999999996 5567788999999999886211  1   2    999999999999999977 99888743333344


Q ss_pred             EE
Q 026648          212 FY  213 (235)
Q Consensus       212 ~~  213 (235)
                      .+
T Consensus        93 p~   94 (119)
T 1wwh_A           93 PC   94 (119)
T ss_dssp             EC
T ss_pred             EC
Confidence            43

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=96.18  E-value=0.011  Score=44.91  Aligned_cols=72  Identities=14%  Similarity=0.239  Sum_probs=54.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCc-eEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPL-ILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~-~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +-+|.|+.||+..||+++.+.+++.-.+.....+..+  .+.+.++ .-|+|.|.+.++...-.+.++|+.....
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 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAAD--LSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLDS   81 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCC--SSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEECT
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCc--cCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEeC
Confidence            3589999999999999999999988765444444444  1111111 2489999999999999999999876653

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.17  E-value=0.0072  Score=57.38  Aligned_cols=55  Identities=11%  Similarity=0.200  Sum_probs=41.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHH
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMD  195 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~  195 (235)
                      .++|||. .|..+++.+|.+.|++||.|.++.+-.+++        .|+.|||.+.++++.+++
T Consensus        53 ~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~g--------~~~~vef~~~~~~~~~~~  107 (464)
T 3pq1_A           53 QRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESFG--------LYAVVEFCQKESIGSLQN  107 (464)
T ss_dssp             HTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSSS--------EEEEEECC---CCHHHHS
T ss_pred             cceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccCC--------eEEEEEeCCHHHHHHHHh
Confidence            4789997 799999999999999999999998876652        399999999999886643

>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=94.93  E-value=0.014  Score=45.81  Aligned_cols=34  Identities=12%  Similarity=0.053  Sum_probs=27.2

Q ss_pred             EEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcC
Q 026648          161 EVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQG  199 (235)
Q Consensus       161 ~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG  199 (235)
                      .++|+.+...     ++|||||+|.+.++|++|++.+++
T Consensus         2 ~~kl~ln~~~-----~~G~~fV~f~~~~~A~~al~~~~~   35 (158)
T 2kn4_A            2 QYKLILNGKT-----LKGETTTEAVDAATAEKVFKQYAN   35 (158)
T ss_dssp             EEEEEEECSS-----CEEEEEEECSSHHHHHHHHHHHHH
T ss_pred             cEEEEecCcc-----ccchhHHHHHHHHhHHHHHHhhcc
Confidence            4677777632     344999999999999999998875

>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=93.96  E-value=0.16  Score=48.44  Aligned_cols=55  Identities=16%  Similarity=0.405  Sum_probs=48.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhc
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln  198 (235)
                      ...|+|+ +|......+|.++|+.||. .+|+.+.+.          .|||.|.+.+.|..+++++.
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            4678887 9999999999999999995 477777664          89999999999999999985

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=92.64  E-value=0.097  Score=41.72  Aligned_cols=80  Identities=19%  Similarity=0.142  Sum_probs=53.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEE-EEee---------CC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCce
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEV-RLVS---------KE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQS  201 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~v-rl~~---------dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~  201 (235)
                      ..|.|=+.|.+.+.. +-+.|++||.|.+- .+..         .+ .+-+.=....+-.|.|+++.+|.+|++. ||..
T Consensus         8 ~~VtVFGFp~~~~~~-VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~-NG~i   85 (132)
T 3p3d_A            8 LAILVFGYPETMANQ-VIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLE-NGAV   85 (132)
T ss_dssp             CEEEEECCCGGGHHH-HHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTT-TTCE
T ss_pred             eEEEEEecCHHHHHH-HHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHh-CCeE
Confidence            568888887777665 45679999999872 2111         00 1101000012889999999999999976 9999


Q ss_pred             EeeeeeceEEEEec
Q 026648          202 NIICLSNLVVFYQI  215 (235)
Q Consensus       202 i~~~r~~~~~~~~~  215 (235)
                      |..| ..-|+.|+.
T Consensus        86 i~G~-mIGV~Py~~   98 (132)
T 3p3d_A           86 FNGV-LLGVIPYTK   98 (132)
T ss_dssp             ETTE-ECEEEECCH
T ss_pred             eCcE-EEEEEECCH
Confidence            8877 555777763

>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=86.43  E-value=0.26  Score=38.24  Aligned_cols=28  Identities=11%  Similarity=-0.110  Sum_probs=24.7

Q ss_pred             ceEEEEEecCHHHHHHHHHHh-cCceEee
Q 026648          177 LILCFVDFVSPAHAATAMDAL-QGQSNII  204 (235)
Q Consensus       177 ~~faFVeF~s~~~A~~Ai~~L-nG~~i~~  204 (235)
                      +|+++|+|.+.++|++|++.| ||..++.
T Consensus        13 ~G~~~ve~~~~~~A~~a~~~~~ng~~~~G   41 (150)
T 2i2y_A           13 KGETTTEAVDAATAEKVFKQYANDNGVDG   41 (150)
T ss_dssp             CEEEEEECSSHHHHTTTHHHHHHHHTCCC
T ss_pred             cccceeeecCHHHHHHHHHHHhcCCCCCC
Confidence            359999999999999999999 8877765

---

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	235
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	6e-11
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	7e-10
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	3e-08
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	6e-08
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	7e-08
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	1e-07
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	2e-07
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	2e-07
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	3e-07
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	6e-07
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	7e-07
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	1e-06
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	1e-06
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	2e-06
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	3e-06
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	3e-06
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	4e-06
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-05
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	1e-05
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-05
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	2e-05
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	2e-05
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	2e-05
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	2e-05
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	3e-05
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	3e-05
d2b0ga1	83	d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosoph	3e-05
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	3e-05
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	6e-05
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	6e-05
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	6e-05
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	9e-05
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	9e-05
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	1e-04
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	2e-04
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	2e-04
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	2e-04
d2cq2a1	101	d.58.7.1 (A:25-125) Alkylation repair AlkB homolog	4e-04
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	4e-04
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	4e-04
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	6e-04
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	6e-04
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	6e-04
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	7e-04
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	8e-04
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	0.001
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	0.001
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	0.001
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	0.001
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	0.001
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	0.002
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	0.002
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	0.002
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	0.002
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	0.002
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	0.003
d1whxa_	111	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	0.004
d2cq1a1	88	d.58.7.1 (A:51-138) Polypyrimidine tract-binding p	0.004

>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 = 55.3 bits (133), Expect = 6e-11
 Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 3/80 (3%)

Query: 124 EVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVD 183
           +VP     +S + V  +P   ++RE+  +F  F   K VRL  K      G      FVD
Sbjct: 1   QVP-KKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKK--MTGTGAHRGFGFVD 57

Query: 184 FVSPAHAATAMDALQGQSNI 203
           F++   A  A +AL   +++
Sbjct: 58  FITKQDAKKAFNALCHSTHL 77

>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 = 52.7 bits (126), Expect = 7e-10
 Identities = 16/74 (21%), Positives = 29/74 (39%), Gaps = 6/74 (8%)

Query: 127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVS 186
           LPP+ +  L++  LP   +  E+  IF  +   +++R           +     +V +  
Sbjct: 2   LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIR------VGNTPETRGTAYVVYED 55

Query: 187 PAHAATAMDALQGQ 200
              A  A D L G 
Sbjct: 56  IFDAKNACDHLSGF 69

>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 = 47.8 bits (113), Expect = 3e-08
 Identities = 18/81 (22%), Positives = 30/81 (37%), Gaps = 7/81 (8%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
           G R+     PD +  L V GL    + R++  +F  +    +V +V  +           
Sbjct: 1   GNRAN----PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRR---SRGF 53

Query: 180 CFVDFVSPAHAATAMDALQGQ 200
            FV F +   A  A +   G 
Sbjct: 54  AFVYFENVDDAKEAKERANGM 74

>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 = 46.8 bits (111), Expect = 6e-08
 Identities = 16/66 (24%), Positives = 21/66 (31%), Gaps = 4/66 (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 DALQGQ 200
               G 
Sbjct: 59  KQYNGV 64

>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 = 46.9 bits (111), Expect = 7e-08
 Identities = 16/69 (23%), Positives = 29/69 (42%), Gaps = 3/69 (4%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           S TL+V  L    +  ++  +F      K++ +   + +         CFV++ S A A 
Sbjct: 7   SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKT---ACGFCFVEYYSRADAE 63

Query: 192 TAMDALQGQ 200
            AM  + G 
Sbjct: 64  NAMRYINGT 72

>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 = 46.1 bits (109), Expect = 1e-07
 Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 3/69 (4%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
            + L+V  LP   +  ++  IF  +     +   +       G P  + FV +     A 
Sbjct: 6   DTNLYVTNLPRTITDDQLDTIFGKY---GSIVQKNILRDKLTGRPRGVAFVRYNKREEAQ 62

Query: 192 TAMDALQGQ 200
            A+ AL   
Sbjct: 63  EAISALNNV 71

>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 = 45.0 bits (106), Expect = 2e-07
 Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 3/70 (4%)

Query: 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHA 190
           +++ L V  LP D + RE+  +FR       +        +  G      FVDF S   +
Sbjct: 1   SNTNLIVNYLPQDMTDRELYALFRAI---GPINTCRIMRDYKTGYSYGYAFVDFTSEMDS 57

Query: 191 ATAMDALQGQ 200
             A+  L G 
Sbjct: 58  QRAIKVLNGI 67

>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 = 45.0 bits (106), Expect = 2e-07
 Identities = 14/66 (21%), Positives = 27/66 (40%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           LF++ L    +   +  +F      K   +  K+++      +   FV++  P  A  A+
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 60

Query: 195 DALQGQ 200
             LQG 
Sbjct: 61  KQLQGH 66

>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 = 44.9 bits (106), Expect = 3e-07
 Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 3/67 (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 MDALQGQ 200
           +D +   
Sbjct: 59  LDTMNFD 65

>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 = 44.3 bits (104), Expect = 6e-07
 Identities = 16/71 (22%), Positives = 26/71 (36%), Gaps = 3/71 (4%)

Query: 130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAH 189
           D ++T+ V  L  D    ++  +FRPF     +           G      F+ F     
Sbjct: 6   DDNATIRVTNLSEDTRETDLQELFRPFGSISRIY---LAKDKTTGQSKGFAFISFHRRED 62

Query: 190 AATAMDALQGQ 200
           AA A+  + G 
Sbjct: 63  AARAIAGVSGF 73

>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 = 43.9 bits (103), Expect = 7e-07
 Identities = 13/72 (18%), Positives = 23/72 (31%), Gaps = 3/72 (4%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
            +  +T++V GL    S   +  +F                    G      FV+F+S  
Sbjct: 6   RNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTH---MPKDRVTGQHQGYGFVEFLSEE 62

Query: 189 HAATAMDALQGQ 200
            A  A+  +   
Sbjct: 63  DADYAIKIMDMI 74

>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 = 43.5 bits (102), Expect = 1e-06
 Identities = 15/68 (22%), Positives = 29/68 (42%), Gaps = 3/68 (4%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAAT 192
           + L+V GLP   +++E+  +F  +      R++  +          + F+ F     A  
Sbjct: 7   ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGV---SRGVGFIRFDKRIEAEE 63

Query: 193 AMDALQGQ 200
           A+  L GQ
Sbjct: 64  AIKGLNGQ 71

>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 = 43.4 bits (102), Expect = 1e-06
 Identities = 15/69 (21%), Positives = 30/69 (43%), Gaps = 9/69 (13%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           + T++  G+ S  + + +   F PF    E+R+  ++            FV F +   AA
Sbjct: 18  NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGY---------SFVRFSTHESAA 68

Query: 192 TAMDALQGQ 200
            A+ ++ G 
Sbjct: 69  HAIVSVNGT 77

>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 = 43.1 bits (101), Expect = 2e-06
 Identities = 17/87 (19%), Positives = 34/87 (39%), Gaps = 7/87 (8%)

Query: 114 RALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPG 173
           +++G  G + E P      + LF+  LP +   +++  +F PF      +          
Sbjct: 4   QSIGAAGSQKEGP----EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAK---VFIDKQT 56

Query: 174 GDPLILCFVDFVSPAHAATAMDALQGQ 200
                  FV + +P  A  A+ ++ G 
Sbjct: 57  NLSKCFGFVSYDNPVSAQAAIQSMNGF 83

>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 = 42.3 bits (99), Expect = 3e-06
 Identities = 11/72 (15%), Positives = 22/72 (30%), Gaps = 3/72 (4%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
           P+    LF+ GL  + +   +   F  +    +                   FV + +  
Sbjct: 3   PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCV---VMRDPNTKRSRGFGFVTYATVE 59

Query: 189 HAATAMDALQGQ 200
               AM+A   +
Sbjct: 60  EVDAAMNARPHK 71

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.3 bits (99), Expect = 3e-06
 Identities = 15/69 (21%), Positives = 24/69 (34%), 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 ATAMDALQG 199
              M     
Sbjct: 64  VKVMSQRHM 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 = 14/74 (18%), Positives = 25/74 (33%), Gaps = 9/74 (12%)

Query: 127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVS 186
            PP  S+TL +  +P   S  ++  +F    G  +     ++ R           +   S
Sbjct: 7   FPP--SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKM-------ALIQMGS 57

Query: 187 PAHAATAMDALQGQ 200
              A  A+  L   
Sbjct: 58  VEEAVQALIDLHNH 71

>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 = 40.9 bits (95), Expect = 1e-05
 Identities = 13/94 (13%), Positives = 23/94 (24%), Gaps = 9/94 (9%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
            G S        S  + V GL       ++      F     V ++  + +         
Sbjct: 3   SGSSGSHHKVSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKRQ--------- 53

Query: 180 CFVDFVSPAHAATAMDALQGQSNIICLSNLVVFY 213
             V+F +   A   +         I        Y
Sbjct: 54  ALVEFENIDSAKECVTFAADVPVYIAGQQAFFNY 87

>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 = 40.4 bits (94), Expect = 1e-05
 Identities = 16/67 (23%), Positives = 31/67 (46%), Gaps = 5/67 (7%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TL+V  L  D +   +  +F      K  +++++ + +        CFV+F     AA A
Sbjct: 10  TLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSND-----PYCFVEFYEHRDAAAA 64

Query: 194 MDALQGQ 200
           + A+ G+
Sbjct: 65  LAAMNGR 71

>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 = 40.0 bits (93), Expect = 1e-05
 Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 3/69 (4%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
           +  LF+ GLP+  +  +V  +   F   K   LV   +           F ++V      
Sbjct: 1   AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGL---SKGYAFCEYVDINVTD 57

Query: 192 TAMDALQGQ 200
            A+  L G 
Sbjct: 58  QAIAGLNGM 66

>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 = 40.1 bits (93), Expect = 2e-05
 Identities = 15/79 (18%), Positives = 25/79 (31%), Gaps = 1/79 (1%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAAT 192
             LF+ G+P    R E+            + ++   S           FV++ S   AA 
Sbjct: 2   CRLFIGGIPKMKKREEILEEIAKV-TEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAM 60

Query: 193 AMDALQGQSNIICLSNLVV 211
           A   L      +    + V
Sbjct: 61  ARRKLMPGRIQLWGHQIAV 79

>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 = 40.1 bits (93), Expect = 2e-05
 Identities = 18/72 (25%), Positives = 25/72 (34%), Gaps = 3/72 (4%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
              S  LFV  L    S  ++  +F  +    E+             P    FV F+ P 
Sbjct: 5   SSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKK---PKGFAFVTFMFPE 61

Query: 189 HAATAMDALQGQ 200
           HA  A   + GQ
Sbjct: 62  HAVKAYAEVDGQ 73

>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 = 39.7 bits (92), Expect = 2e-05
 Identities = 16/68 (23%), Positives = 27/68 (39%), Gaps = 3/68 (4%)

Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAAT 192
           + L V  LP + ++ E   +F       E+           G  L   FV+++ P  A  
Sbjct: 3   TNLIVNYLPQNMTQEEFRSLFGSI---GEIESCKLVRDKITGQSLGYGFVNYIDPKDAEK 59

Query: 193 AMDALQGQ 200
           A++ L G 
Sbjct: 60  AINTLNGL 67

>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 = 39.8 bits (92), Expect = 2e-05
 Identities = 16/77 (20%), Positives = 28/77 (36%), 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 VSPAHAATAMDALQGQS 201
           ++   A   + A   ++
Sbjct: 58  MTQEAAQKCLAAASLEA 74

>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 = 39.9 bits (93), Expect = 3e-05
 Identities = 17/81 (20%), Positives = 30/81 (37%), Gaps = 12/81 (14%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
           G S    P   +S +F+  L +    + +V  IF  +       +      H G      
Sbjct: 4   GSSGKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSV------HKG-----F 52

Query: 180 CFVDFVSPAHAATAMDALQGQ 200
            FV +V+  +A  A+    G+
Sbjct: 53  AFVQYVNERNARAAVAGEDGR 73

>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 = 39.2 bits (91), Expect = 3e-05
 Identities = 12/69 (17%), Positives = 24/69 (34%), Gaps = 5/69 (7%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
              +F++ L      + +   F  F      ++V  E+           FV F +   A 
Sbjct: 8   VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK-----GYGFVHFETQEAAE 62

Query: 192 TAMDALQGQ 200
            A++ + G 
Sbjct: 63  RAIEKMNGM 71

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 39.1 bits (90), Expect = 3e-05
 Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 10/78 (12%)

Query: 123 SEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFV 182
           ++   PP  +  LF+  LP + +   ++ +F  F G+KE             +   + FV
Sbjct: 1   AQTEQPP--NQILFLTNLPEETNEMMLSMLFNQFPGFKE--------VRLVPNRHDIAFV 50

Query: 183 DFVSPAHAATAMDALQGQ 200
           +F +   +  A +ALQG 
Sbjct: 51  EFTTELQSNAAKEALQGF 68

>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 = 39.3 bits (91), Expect = 3e-05
 Identities = 12/73 (16%), Positives = 26/73 (35%), Gaps = 10/73 (13%)

Query: 132 SSTLFVEGLPSDCS----RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           + T+++  L         ++ +  IF  F    ++ +                FV F   
Sbjct: 3   NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILV------SRSLKMRGQAFVIFKEV 56

Query: 188 AHAATAMDALQGQ 200
           + A  A+ ++QG 
Sbjct: 57  SSATNALRSMQGF 69

>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 = 38.9 bits (90), Expect = 6e-05
 Identities = 14/72 (19%), Positives = 28/72 (38%), Gaps = 8/72 (11%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
             A+ TL  + L  + +  E+  +F   +  + V           G    + +++F S A
Sbjct: 13  VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV--------SQDGKSKGIAYIEFKSEA 64

Query: 189 HAATAMDALQGQ 200
            A   ++  QG 
Sbjct: 65  DAEKNLEEKQGA 76

>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 = 38.4 bits (89), Expect = 6e-05
 Identities = 15/69 (21%), Positives = 23/69 (33%), Gaps = 9/69 (13%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
            S LFV  LP D +  E+  +F  +    EV +   +            F+   +   A 
Sbjct: 8   RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGF---------GFIRLETRTLAE 58

Query: 192 TAMDALQGQ 200
            A   L   
Sbjct: 59  IAKVELDNM 67

>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 = 38.5 bits (89), Expect = 6e-05
 Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 3/67 (4%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
            L+V GL  +   + +   F PF    ++  +     +         FV+F     AA A
Sbjct: 7   VLYVGGLAEEVDDKVLHAAFIPF---GDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 63

Query: 194 MDALQGQ 200
           +D +   
Sbjct: 64  IDNMNES 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 = 38.1 bits (88), Expect = 9e-05
 Identities = 18/81 (22%), Positives = 27/81 (33%), Gaps = 8/81 (9%)

Query: 120 GGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLIL 179
            G SE    P     L V  +P      ++  +F  F      +++  E           
Sbjct: 2   SGNSESKSTP---KRLHVSNIPFRFRDPDLRQMFGQF-----GKILDVEIIFNERGSKGF 53

Query: 180 CFVDFVSPAHAATAMDALQGQ 200
            FV F + A A  A + L G 
Sbjct: 54  GFVTFENSADADRAREKLHGT 74

>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 = 37.8 bits (87), Expect = 9e-05
 Identities = 15/75 (20%), Positives = 25/75 (33%), Gaps = 3/75 (4%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFV 185
           P        LFV  +  +    E+   F     Y E++ +        G       V++ 
Sbjct: 1   PQRSVEGWILFVTSIHEEAQEDEIQEKFCD---YGEIKNIHLNLDRRTGFSKGYALVEYE 57

Query: 186 SPAHAATAMDALQGQ 200
           +   A  A +AL G 
Sbjct: 58  THKQALAAKEALNGA 72

>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 = 37.8 bits (87), Expect = 1e-04
 Identities = 16/80 (20%), Positives = 30/80 (37%), Gaps = 5/80 (6%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGD-----PLILC 180
           P     +S ++V+GL    +  ++A  F+     K  +   +   H   D     P    
Sbjct: 2   PDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDA 61

Query: 181 FVDFVSPAHAATAMDALQGQ 200
            V +  P  A  A++   G+
Sbjct: 62  TVSYEDPPTAKAAVEWFDGK 81

>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 = 36.9 bits (85), Expect = 2e-04
 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

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.7 bits (87), Expect = 2e-04
 Identities = 14/85 (16%), Positives = 28/85 (32%), Gaps = 7/85 (8%)

Query: 129 PDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPA 188
                 + VE L    +   +  IF  F    ++   +K ++           + +  P 
Sbjct: 4   QSPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQFQA-------LLQYADPV 56

Query: 189 HAATAMDALQGQSNIICLSNLVVFY 213
            A  A  +L GQ+       L + +
Sbjct: 57  SAQHAKLSLDGQNIYNACCTLRIDF 81

>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 = 37.5 bits (86), Expect = 2e-04
 Identities = 12/73 (16%), Positives = 27/73 (36%), Gaps = 3/73 (4%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
           P + +  L+++ L    + R++  +F  F   K   +  +             F+ F + 
Sbjct: 14  PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGR---MRGQAFITFPNK 70

Query: 188 AHAATAMDALQGQ 200
             A  A+  + G 
Sbjct: 71  EIAWQALHLVNGY 83

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (84), Expect = 4e-04
 Identities = 12/90 (13%), Positives = 26/90 (28%), Gaps = 9/90 (10%)

Query: 124 EVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVD 183
           E       S  +   GL +  SR ++  +         + +   +            F  
Sbjct: 12  ETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPY---------SFAR 62

Query: 184 FVSPAHAATAMDALQGQSNIICLSNLVVFY 213
           + +   +  A   L G+  +  L   +  Y
Sbjct: 63  YRTTEESKRAYVTLNGKEVVDDLGQKITLY 92

>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 = 35.7 bits (82), Expect = 4e-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

>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 = 35.5 bits (81), Expect = 4e-04
 Identities = 14/66 (21%), Positives = 27/66 (40%), Gaps = 3/66 (4%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           L++ GL    + +++  + +P+      +                 FVDF SP+ A  A+
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGKIVSTK---AILDKTTNKCKGYGFVDFDSPSAAQKAV 57

Query: 195 DALQGQ 200
            AL+  
Sbjct: 58  TALKAS 63

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (82), Expect = 6e-04
 Identities = 18/82 (21%), Positives = 33/82 (40%), Gaps = 7/82 (8%)

Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLI 178
           GGG    P   +    ++V  LP D   +++  +F  +   +++ L ++    P      
Sbjct: 2   GGGVIRGP-AGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPF----- 55

Query: 179 LCFVDFVSPAHAATAMDALQGQ 200
             FV+F  P  A  A+    G 
Sbjct: 56  -AFVEFEDPRDAEDAVYGRDGY 76

>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 = 35.5 bits (81), Expect = 6e-04
 Identities = 11/67 (16%), Positives = 23/67 (34%), Gaps = 3/67 (4%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
           TL++   P   ++R +  + +       V L  +             ++D  S   A   
Sbjct: 3   TLWMTNFPPSYTQRNIRDLLQD---INVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYC 59

Query: 194 MDALQGQ 200
           ++ L G 
Sbjct: 60  VEKLNGL 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 = 35.3 bits (81), Expect = 6e-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

>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 = 35.4 bits (81), Expect = 7e-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

>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 = 35.1 bits (80), Expect = 8e-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

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.0 bits (80), Expect = 0.001
 Identities = 15/67 (22%), Positives = 20/67 (29%), Gaps = 9/67 (13%)

Query: 134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATA 193
            L+V  L    S   +   F         R+                FV F +   A  A
Sbjct: 10  ILYVRNLMLSTSEEMIEKEFNNIKPGAVERV---------KKIRDYAFVHFSNREDAVEA 60

Query: 194 MDALQGQ 200
           M AL G+
Sbjct: 61  MKALNGK 67

>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 = 36.5 bits (83), Expect = 0.001
 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

>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 = 36.0 bits (82), Expect = 0.001
 Identities = 16/73 (21%), Positives = 27/73 (36%), Gaps = 3/73 (4%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
            PD    L V  +P+     ++  +F  +   + V++V               FV F S 
Sbjct: 38  EPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGY---GFVKFQSG 94

Query: 188 AHAATAMDALQGQ 200
           + A  A+  L G 
Sbjct: 95  SSAQQAIAGLNGF 107

>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 = 34.7 bits (79), Expect = 0.001
 Identities = 12/66 (18%), Positives = 27/66 (40%), Gaps = 2/66 (3%)

Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAM 194
           +F+  L  +   + +   F  F    +   + +      G+     F++F S   +  A+
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMR--DPDTGNSKGYAFINFASFDASDAAI 58

Query: 195 DALQGQ 200
           +A+ GQ
Sbjct: 59  EAMNGQ 64

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.0 bits (80), Expect = 0.001
 Identities = 20/94 (21%), Positives = 36/94 (38%), Gaps = 20/94 (21%)

Query: 107 PGPSAKDRALGLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS 166
            G S K     +G G++     P  ++ L+V GL  + S   +A  F  F   + +  V 
Sbjct: 3   SGSSGK-----IGYGKA----NP--TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK 51

Query: 167 KESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ 200
            +S           ++ + S   A  A   ++G 
Sbjct: 52  GDSF---------AYIQYESLDAAQAACAKMRGF 76

>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 = 34.7 bits (79), Expect = 0.002
 Identities = 14/80 (17%), Positives = 23/80 (28%), Gaps = 4/80 (5%)

Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILC 180
           G S   LP     T F+  LP D +   +   FR                          
Sbjct: 4   GSSGSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLP---REPSNPERLKGFG 60

Query: 181 FVDFVSPAHAATAMDALQGQ 200
           + +F       +A+ +L  +
Sbjct: 61  YAEFEDLDSLLSAL-SLNEE 79

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.3 bits (78), Expect = 0.002
 Identities = 13/69 (18%), Positives = 23/69 (33%), Gaps = 3/69 (4%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
            + + V+ +P   S  E+   F  +        +     +  G P     V F S   A 
Sbjct: 9   PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCL---KYNEKGMPTGEAMVAFESRDEAT 65

Query: 192 TAMDALQGQ 200
            A+  L  +
Sbjct: 66  AAVIDLNDR 74

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.7 bits (79), Expect = 0.002
 Identities = 15/75 (20%), Positives = 26/75 (34%), Gaps = 3/75 (4%)

Query: 126 PLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFV 185
           P    +  ++FV  +P + +  ++  IF         RLV               + D  
Sbjct: 2   PAVDRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQD-- 59

Query: 186 SPAHAATAMDALQGQ 200
               A +AM  L G+
Sbjct: 60  -QETALSAMRNLNGR 73

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.7 bits (79), 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

>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 = 33.9 bits (77), Expect = 0.002
 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

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.8 bits (77), Expect = 0.003
 Identities = 18/86 (20%), Positives = 31/86 (36%), Gaps = 11/86 (12%)

Query: 122 RSEVPLPPDASS-------TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGG 174
           +S V  P D  S       T+F   L +    R++   F      ++VR++S  +     
Sbjct: 1   KSPVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSR--- 57

Query: 175 DPLILCFVDFVSPAHAATAMDALQGQ 200
               + +V+F            L GQ
Sbjct: 58  RSKGIAYVEFCEIQSVP-LAIGLTGQ 82

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 111

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.8 bits (76), Expect = 0.004
 Identities = 13/69 (18%), Positives = 20/69 (28%), Gaps = 9/69 (13%)

Query: 132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAA 191
            + +  + LP+     E+   F  F     V L                 V+F+ P  A 
Sbjct: 10  KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGIT---------AIVEFLEPLEAR 60

Query: 192 TAMDALQGQ 200
            A   L   
Sbjct: 61  KAFRHLAYS 69

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.3 bits (75), Expect = 0.004
 Identities = 13/86 (15%), Positives = 26/86 (30%), Gaps = 11/86 (12%)

Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP 187
            P  S  L +  LP + +  EV  +  PF                        F++  + 
Sbjct: 6   AP--SRVLHIRKLPGEVTETEVIALGLPFGKVT---------NILMLKGKNQAFLELATE 54

Query: 188 AHAATAMDALQGQSNIICLSNLVVFY 213
             A T ++     +  +    + + Y
Sbjct: 55  EAAITMVNYYSAVTPHLRNQPIYIQY 80

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	235
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.78
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.78
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.77
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.75
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.75
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.75
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.74
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.74
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.74
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.74
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.74
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.74
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.73
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.73
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.73
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.73
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.72
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.72
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.72
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.71
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.71
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.71
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.71
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.71
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.7
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.7
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.69
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.69
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.69
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.69
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.69
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.69
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.68
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.68
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.68
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.68
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.68
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.68
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.67
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.67
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.67
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.67
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.67
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.67
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.67
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.67
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.66
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.66
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.66
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.66
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.65
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.65
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.65
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.64
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.64
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.64
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.64
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.64
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.63
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.63
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.63
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.62
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.62
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.62
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.62
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.61
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.6
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.6
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.6
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.6
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.6
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.59
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.56
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.55
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.55
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.53
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.53
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.5
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.46
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.46
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.44
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.4
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.36
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	99.33
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.3
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.24
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.15
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	97.16
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	95.67
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	94.92
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	93.29

>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=99.78  E-value=2.3e-19  Score=130.18  Aligned_cols=74  Identities=20%  Similarity=0.196  Sum_probs=65.8

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +++++|||+|||.++|+++|+++|++||.|++|+|+.++.   .|+++|||||+|.+.++|++|+++|||+.+....
T Consensus         7 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~---~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~   80 (83)
T d2cqca1           7 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQ---SRRSRGFAFVYFENVDDAKEAKERANGMELDGRR   80 (83)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSS---SSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCCcccccccccc---ccccccceEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            3468999999999999999999999999999999998872   1455669999999999999999999999988643

>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=99.78  E-value=5.9e-19  Score=134.77  Aligned_cols=80  Identities=24%  Similarity=0.429  Sum_probs=67.7

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       127 ~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +||+.+++|||+|||.++|+++|+++|++||.|++|++..+. . .+|    ||||+|.+.++|..|++.|||+.|... 
T Consensus         2 ~pp~~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~~-~-~kG----~afV~f~~~~~A~~Ai~~l~g~~~~gr-   74 (114)
T d2f9da1           2 LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP-E-TRG----TAYVVYEDIFDAKNACDHLSGFNVCNR-   74 (114)
T ss_dssp             CCTTCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECST-T-TTT----EEEEEESSHHHHHHHHHHHTTCEETTE-
T ss_pred             cccCCCCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccC-C-cCC----eEEEEECCHHHHHHHHHHhCCCEECCE-
Confidence            466678999999999999999999999999999999998764 2 224    999999999999999999999999864 


Q ss_pred             eceEEEE
Q 026648          207 SNLVVFY  213 (235)
Q Consensus       207 ~~~~~~~  213 (235)
                      .+.+.++
T Consensus        75 ~l~V~~a   81 (114)
T d2f9da1          75 YLVVLYY   81 (114)
T ss_dssp             ECEEEEC
T ss_pred             EEEEEEc
Confidence            3334343

>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=99.77  E-value=5.3e-19  Score=127.59  Aligned_cols=69  Identities=28%  Similarity=0.410  Sum_probs=62.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +++|||+|||+++|+++|+++|++||.|++|+|+.++ +    |.++|||||+|.++++|++|++.|||+++..
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~----g~~~g~afV~f~~~~~A~~ai~~lng~~~~g   71 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKT----GYSYGYAFVDFTSEMDSQRAIKVLNGITVRN   71 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTT----TEECSEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccc----CCccccceEEECCHHHHHHHHHHhCCCEECC
Confidence            5789999999999999999999999999999999887 3    3444599999999999999999999999875

>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=99.75  E-value=1.2e-18  Score=127.27  Aligned_cols=72  Identities=22%  Similarity=0.387  Sum_probs=64.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +++|||+|||.++|+++|+++|++||.|++|+|+.++.   .|.++|||||+|.++++|++|++.|||..+....
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~---~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~   77 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQV---TGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGAT   77 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccc---cccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCC
Confidence            47899999999999999999999999999999999872   1345569999999999999999999999987643

>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=99.75  E-value=2.3e-18  Score=124.07  Aligned_cols=72  Identities=24%  Similarity=0.403  Sum_probs=64.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++|||+|||.++|+++|+++|++||.|++|+|+.++.   .|.++|||||+|.++++|++|++.|||..+....
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~---~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~   73 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKI---TGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKT   73 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCcccccceeecc---CCCceeeEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            36899999999999999999999999999999998862   1455669999999999999999999999987643

>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=99.75  E-value=1.2e-18  Score=126.58  Aligned_cols=70  Identities=20%  Similarity=0.290  Sum_probs=62.8

Q ss_pred             EEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       135 LfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      |||+|||.++|+++|+++|++||.|++|+|+.++.....+.++|||||+|.+.++|++|++.|||+.+..
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g   70 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDG   70 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETT
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            8999999999999999999999999999999887433323567799999999999999999999998875

>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=99.74  E-value=3.1e-18  Score=128.08  Aligned_cols=71  Identities=25%  Similarity=0.406  Sum_probs=63.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +++|||+|||+++|+++|+++|++||.|++|+|+.++ ++    +++|||||+|.+.++|++||+.|||+.|....
T Consensus         8 ~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg----~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~   79 (99)
T d1whwa_           8 SGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTK----KPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRM   79 (99)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTC----CCCSEEEEEESSHHHHHHHHHHTTTEESSSCE
T ss_pred             CCEEEEECCCCcCCHHHHHHHHHhcCCceeeeeccccccc----ccCcceEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            5789999999999999999999999999999999887 43    34449999999999999999999999887543

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=2.8e-18  Score=127.37  Aligned_cols=71  Identities=23%  Similarity=0.276  Sum_probs=64.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++||||+|||.++|+++|+++|++||.|++|+|+.++.   .|.++|||||+|.+.++|+.|++.|||+.|..
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~---~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g   76 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKM---KKTACGFCFVEYYSRADAENAMRYINGTRLDD   76 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHHHTTTSEETT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccc---cccccceEEEEECCHHHHHHHHHHhCCCEECC
Confidence            368999999999999999999999999999999999872   24556699999999999999999999999975

>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=99.74  E-value=2.6e-18  Score=125.15  Aligned_cols=72  Identities=19%  Similarity=0.295  Sum_probs=64.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +++|||+|||.++|+++|+++|++||.|.+|+|+.++.   .|+++|||||+|.+.++|++|++.|||..+..+.
T Consensus         6 ~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~---~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   77 (85)
T d1b7fa2           6 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKL---TGRPRGVAFVRYNKREEAQEAISALNNVIPEGGS   77 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCS
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccc---cccCceeEEEEECCHHHHHHHHHHHCCCEeCCCC
Confidence            47899999999999999999999999999999999872   2456669999999999999999999999887643

>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=99.74  E-value=2.8e-18  Score=126.00  Aligned_cols=74  Identities=19%  Similarity=0.233  Sum_probs=65.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      +++|||+|||.++|+++|+++|++||.|++|+|+.++.   .|+++|||||+|.+.++|++|++.|||+.+......
T Consensus         7 ~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~---tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~   80 (88)
T d1rk8a_           7 GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRR---TGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQ   80 (88)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT---TSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCccccccccccc---ccccccceeEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            57999999999999999999999999999999999861   145566999999999999999999999998764433

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=3.4e-18  Score=122.90  Aligned_cols=69  Identities=23%  Similarity=0.198  Sum_probs=62.7

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +|||+|||+++++++|+++|++||.|++|+|+.+++++..|    ||||+|.++++|++|++.|||+.+..+.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g----~afV~f~~~~~A~~Ai~~l~g~~l~g~~   70 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLG----TADVHFERKADALKAMKQYNGVPLDGRP   70 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCCCSCC----EEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeeccccce----eEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            69999999999999999999999999999999987544444    9999999999999999999999988643

>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=99.74  E-value=3.8e-18  Score=125.69  Aligned_cols=73  Identities=22%  Similarity=0.382  Sum_probs=65.2

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ..++|||+|||.++|+++|+++|++||.|++|+|+.++.   .|.++|||||+|.+.++|++|++.|||+.+..+.
T Consensus         7 ~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~---t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~   79 (90)
T d2cq0a1           7 DNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKT---TGQSKGFAFISFHRREDAARAIAGVSGFGYDHLI   79 (90)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSS---SCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccccccccccc---ccccccceeEEECCHHHHHHHHHHhCCCEECCEE
Confidence            467999999999999999999999999999999999872   1455569999999999999999999999997644

>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=99.73  E-value=4.8e-18  Score=126.11  Aligned_cols=70  Identities=17%  Similarity=0.150  Sum_probs=63.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .++|||+|||.++|+++|+++|++||.|++|+|+.++ ++    .++|||||+|.+.++|++|++.|||+.+...
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg----~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~   79 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTG----QHQGYGFVEFLSEEDADYAIKIMDMIKLYGK   79 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSC----SBCSCEEEEESSHHHHHHHHHHSSSCBCSSC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeeccccc----ccccceEEEECCHHHHHHHHHHcCCCEECCE
Confidence            5799999999999999999999999999999999987 43    3444999999999999999999999998753

>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=99.73  E-value=3.1e-18  Score=125.94  Aligned_cols=70  Identities=20%  Similarity=0.326  Sum_probs=63.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ++||||+|||+++|+++|+++|++||.|++|+|+.++ ++    .++|||||+|.+.++|++|++.|||..|...
T Consensus         5 ~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~----~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~   75 (89)
T d2cqba1           5 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE----KHRGFAFVEFELAEDAAAAIDNMNESELFGR   75 (89)
T ss_dssp             CSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSC----CCSSEEEECCSSHHHHHHHHHHHTTEEETTE
T ss_pred             CcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccc----cccceeEEEECCHHHHHHHHHHcCCCEECCE
Confidence            5799999999999999999999999999999999887 33    3344999999999999999999999998753

>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=99.73  E-value=2.8e-18  Score=123.77  Aligned_cols=69  Identities=22%  Similarity=0.256  Sum_probs=62.7

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +|||+|||+++|+++|+++|++||.|++|+|+.++.   .|+++|||||+|.++++|++|++.|||+.+...
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~---tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr   70 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMI---TRRSLGYAYVNFQQPADAERALDTMNFDVIKGK   70 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHTTSTTCEETTE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEeccc---ccCCCCceEEEECCHHHHHHHHHHcCCCEECCE
Confidence            699999999999999999999999999999999872   145566999999999999999999999999863

>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=99.73  E-value=6.5e-18  Score=127.38  Aligned_cols=71  Identities=18%  Similarity=0.364  Sum_probs=63.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +++|||+|||+++++++|+++|++||.|++++++.++.   .|.++|||||+|.+.++|+.||+.|||+.|...
T Consensus        18 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~---~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~   88 (102)
T d2cpza1          18 GANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQ---TNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMK   88 (102)
T ss_dssp             TCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSS---SCSEEEEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecc---cCCCccceEEEeCCHHHHHHHHHHhCCCEECCE
Confidence            57899999999999999999999999999999999871   245556999999999999999999999998753

>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=99.72  E-value=2.6e-17  Score=121.96  Aligned_cols=69  Identities=23%  Similarity=0.334  Sum_probs=63.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .++|||+|||+++++++|+++|++||.|++|+|+.++.+.+ |    ||||+|.++++|++|++.|||+.+...
T Consensus        11 ~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~k-g----~afV~f~~~~~a~~Ai~~l~~~~~~g~   79 (93)
T d2cq3a1          11 PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSK-G----FGFVTFENSADADRAREKLHGTVVEGR   79 (93)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTC-C----EEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCc-c----eeEEEECCHHHHHHHHHHcCCCEECCE
Confidence            47899999999999999999999999999999999885433 3    999999999999999999999988753

>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=99.72  E-value=1.4e-17  Score=120.81  Aligned_cols=65  Identities=32%  Similarity=0.581  Sum_probs=60.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++||||+|||.++|+++|+++|++||+|++|+++.++   + |    ||||+|.+.++|+.|++.|||+.+..
T Consensus         8 ~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~---~-g----~afV~f~~~~~A~~A~~~l~g~~~~~   72 (83)
T d2b0ga1           8 NQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNR---H-D----IAFVEFTTELQSNAAKEALQGFKITP   72 (83)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTT---C-S----CEEEEESSHHHHHHHHHHHTTCBSST
T ss_pred             CCEEEEECCCCCCCHHHHHhhhccCccEEEeeeeccc---c-e----eEEEecCCHHHHHHHHHHhCCcEeCC
Confidence            6899999999999999999999999999999998654   2 4    99999999999999999999999864

>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=99.72  E-value=1e-17  Score=124.49  Aligned_cols=81  Identities=26%  Similarity=0.388  Sum_probs=66.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHh-cCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDAL-QGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~L-nG~~i~~~r~~~  209 (235)
                      .+++|||+|||.++++++|+++|++||.|++|+|+.++..  .|.++|||||+|.+.++|++|++.| ||..+.. +...
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~--~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~G-r~l~   83 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTG--TGAHRGFGFVDFITKQDAKKAFNALCHSTHLYG-RRLV   83 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSS--SCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSS-CBCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEecccc--CCCcccEEEEEECCHHHHHHHHHHccCCcEECC-EEEE
Confidence            3578999999999999999999999999999999987521  1344559999999999999999998 8887775 3334


Q ss_pred             EEEEe
Q 026648          210 VVFYQ  214 (235)
Q Consensus       210 ~~~~~  214 (235)
                      +-+++
T Consensus        84 V~~A~   88 (94)
T d2cpha1          84 LEWAD   88 (94)
T ss_dssp             EEECC
T ss_pred             EEEcC
Confidence            44444

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=1.4e-17  Score=122.54  Aligned_cols=69  Identities=23%  Similarity=0.439  Sum_probs=62.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .+||||+|||.++|+++|+++|++||.|++|+|+.++...+ |    ||||+|.+.++|+.|++.|+|+.|...
T Consensus         8 ~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~-~----~afV~f~~~~~A~~A~~~l~~~~~~g~   76 (90)
T d2cqia1           8 PRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSND-P----YCFVEFYEHRDAAAALAAMNGRKILGK   76 (90)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSC-C----EEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccc-e----eeEEEECCHHHHHHHHHHcCCCEECCE
Confidence            47999999999999999999999999999999999874333 3    999999999999999999999998754

>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=99.71  E-value=9.1e-18  Score=123.75  Aligned_cols=73  Identities=19%  Similarity=0.246  Sum_probs=63.4

Q ss_pred             CCeEEEcCCCCCCCHHHH---HHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREV---AHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL---~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++|||+|||++++++||   +++|++||.|++|+|+.++.....+.+.|||||+|+++++|++|++.|||+.+..
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~g   83 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDG   83 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECC
Confidence            478999999999999999   7889999999999999987222222355699999999999999999999999875

>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=99.71  E-value=3.7e-17  Score=122.79  Aligned_cols=69  Identities=16%  Similarity=0.326  Sum_probs=62.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++|||+|||.++|+++|+++|++||.|..++++.+.++    .++|||||+|.+.++|++|++.|||..|..
T Consensus        18 ~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~----~~~g~afV~f~~~~~A~~Ai~~lng~~i~g   86 (101)
T d1x5oa1          18 PTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSG----TSRGVGFARMESTEKCEAVIGHFNGKFIKT   86 (101)
T ss_dssp             TTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSS----CEEEEEEEEESCHHHHHHHHHHHBTCCCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHhhcccccceeeeccccc----ccccceeEEeCCHHHHHHHHHHhCCCEECC
Confidence            479999999999999999999999999999999988643    344599999999999999999999998875

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=6.6e-18  Score=124.11  Aligned_cols=68  Identities=19%  Similarity=0.333  Sum_probs=62.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++|||+|||.++|+++|+++|++||.|.+++|+.++.+++ |    ||||+|++.++|++|++.|||+.|..
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~k-g----~afV~f~~~~~A~~Ai~~l~g~~~~g   75 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSK-G----YGFVHFETQEAAERAIEKMNGMLLND   75 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCC-S----CEEEEESCHHHHHHHTTSSSEEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCc-c----eeEEEECCHHHHHHHHHHcCCCEECC
Confidence            46899999999999999999999999999999999885433 3    99999999999999999999998875

>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=99.71  E-value=8.3e-18  Score=122.84  Aligned_cols=69  Identities=22%  Similarity=0.295  Sum_probs=62.4

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .+|||+|||.++|+++|+++|++||.|++|+|+.++ ++..    +|||||+|.++++|+.|++.|||+.|...
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~----rg~aFV~f~~~~~A~~a~~~l~~~~l~g~   71 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLS----KGYAFCEYVDINVTDQAIAGLNGMQLGDK   71 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCC----CCEEEEEESSSHHHHHHHHTSSSCCCSSS
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeecccccccc----ceeEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            479999999999999999999999999999999987 3333    34999999999999999999999998853

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=4.9e-18  Score=122.30  Aligned_cols=68  Identities=16%  Similarity=0.234  Sum_probs=60.5

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ++|||+|||+++|+++|+++|++||.|++|+|+.++ ++    +++|||||+|.++++|++|++ ++++.|...
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg----~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr   69 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTK----RSRGFGFVTFMDQAGVDKVLA-QSRHELDSK   69 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSS----SCSSEEEECCCCTTHHHHHHH-TTTCCCSSC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCC----CccceEEEEECCHHHHHHHHH-cCCCEECCe
Confidence            589999999999999999999999999999999987 33    344499999999999999997 688888753

>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=99.70  E-value=1.1e-17  Score=131.94  Aligned_cols=73  Identities=21%  Similarity=0.308  Sum_probs=64.9

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +..++|||+|||+++|+++|+++|++||.|++|+|+.++.   .|+++|||||+|.+.++|++||+.|||+.|...
T Consensus        40 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~---t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr  112 (139)
T d1u6fa1          40 DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRE---TRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNK  112 (139)
T ss_dssp             TTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETT---TTEEEEEEEEEESSHHHHHHHHHHTTTEECSSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccc---cccccceeeEEECCHHHHHHHHHHhCCCEECCE
Confidence            3457899999999999999999999999999999999872   134556999999999999999999999999853

>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=99.69  E-value=1.9e-17  Score=119.23  Aligned_cols=69  Identities=13%  Similarity=0.189  Sum_probs=58.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      +||||+|||+++|+++|+++|++||.|..+.++.++ .    |.++|||||+|.++++|++|++.|||+.+...
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~----~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~   71 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRF----NTSRRFAYIDVTSKEDARYCVEKLNGLKIEGY   71 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-----------CCEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeeccccc----ccccceeEEEECCHHHHHHHHHHhCCCEECCE
Confidence            699999999999999999999999999988887765 3    33444999999999999999999999988753

>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=99.69  E-value=4.2e-17  Score=119.19  Aligned_cols=75  Identities=17%  Similarity=0.155  Sum_probs=63.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      ++||||+|||.++|+++|+++|++||.|.++++..+++   +|    ||||+|++.++|.+|+..|||+.|...+.+.+.
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---RK----MALIQMGSVEEAVQALIDLHNHDLGENHHLRVS   82 (88)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSS---TT----CEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeecc---cc----eeEEEECCHHHHHHHHHhccCCEecCCCEEEEE
Confidence            68999999999999999999999999999988776652   24    999999999999999999999988644444444


Q ss_pred             EE
Q 026648          212 FY  213 (235)
Q Consensus       212 ~~  213 (235)
                      +.
T Consensus        83 ~s   84 (88)
T d2adca2          83 FS   84 (88)
T ss_dssp             EC
T ss_pred             eC
Confidence            43

>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=99.69  E-value=2e-17  Score=116.52  Aligned_cols=66  Identities=21%  Similarity=0.380  Sum_probs=60.1

Q ss_pred             EEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       135 LfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      |||+|||.++|+++|+++|++||.|.+++++.++ ++    .++|||||+|.++++|++|++.|||..+..
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~----~~~g~afV~f~~~~~A~~Ai~~lng~~~~G   67 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTN----KCKGYGFVDFDSPSAAQKAVTALKASGVQA   67 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSC----SCCSEEEEEESCHHHHHHHHHHHHHHTCCE
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccc----cccceeEEEECCHHHHHHHHHHhCCCEECC
Confidence            8999999999999999999999999999999887 33    334499999999999999999999998875

>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=99.69  E-value=2.7e-17  Score=122.85  Aligned_cols=69  Identities=23%  Similarity=0.401  Sum_probs=63.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +++|||+|||.++++++|+++|++||.|++|+|+.++     |    ||||+|.++++|++|++.|||+.|......+
T Consensus        18 ~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~k-----g----~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v   86 (96)
T d1x4ga1          18 NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEK-----G----YSFVRFSTHESAAHAIVSVNGTTIEGHVVKC   86 (96)
T ss_dssp             CCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEecc-----e----EEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            5799999999999999999999999999999999875     5    9999999999999999999999988644433

>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=99.69  E-value=2.1e-17  Score=121.13  Aligned_cols=69  Identities=28%  Similarity=0.364  Sum_probs=62.1

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..+|||+|||+++|+++|+++|++||.|..+.++.++ ++    .++|||||+|.++++|++|++.|||+++..
T Consensus         5 ~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~----~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g   74 (90)
T d1x5sa1           5 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQ----RSRGFGFVTFENIDDAKDAMMAMNGKSVDG   74 (90)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSC----SCCSEEEEECSSHHHHHHHHHHHTTCCTTS
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccc----cccceEEEEECCHHHHHHHHHHcCCCEECC
Confidence            4789999999999999999999999999999998876 43    344499999999999999999999998765

>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=99.69  E-value=2e-17  Score=125.00  Aligned_cols=67  Identities=19%  Similarity=0.226  Sum_probs=60.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      ++||||+|||+++++++|+++|++||.|++|+|...+     |    ||||+|.+.++|++|++.|||+++..+..
T Consensus        10 ~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~~k-----g----~afV~f~~~~~A~~A~~~lng~~~~gr~l   76 (111)
T d1whxa_          10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGG-----I----TAIVEFLEPLEARKAFRHLAYSKFHHVPL   76 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCSSS-----S----CEEEEESCHHHHHHHHHHHTTCBSSSSBC
T ss_pred             CCEEEEECCCCCCCHHHHHhhhhccCCccEEEeeccC-----c----eEEEEEcCHHHHHHHHHHHcCCccCCCeE
Confidence            4799999999999999999999999999999986543     4    99999999999999999999999986433

>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=99.68  E-value=2.9e-17  Score=119.78  Aligned_cols=70  Identities=13%  Similarity=0.187  Sum_probs=61.3

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..++|||+|||+++|+++|+++|++||.|.+|+|+.++.   .|.++|||||+|.+++.|++|++ ++|+.|..
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~---tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~G   74 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPN---TKRSRGFGFVTYATVEEVDAAMN-ARPHKVDG   74 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHH-TCSCEETT
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhccccceeeccccc---CCCcccEEEEEEcCHHHHHHHHH-hCCCEECC
Confidence            357999999999999999999999999999999999872   14556699999999999999997 48887754

>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=99.68  E-value=2.6e-17  Score=121.82  Aligned_cols=63  Identities=22%  Similarity=0.302  Sum_probs=56.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHH
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA  196 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~  196 (235)
                      ..++|||+|||+++|+++|+++|++||.|.+|+|+.++.   .|.++|||||+|.++++|++||+.
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~---tg~srG~aFV~f~~~~~a~~al~~   69 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLK---TGHSKGFGFVRFTEYETQVKVMSQ   69 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSS---SCSEEEEEEEEESSHHHHHHHHHS
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCC---CcccCCEEEEEECCHHHHHHHHhc
Confidence            357899999999999999999999999999999999872   145556999999999999999985

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=1e-16  Score=118.95  Aligned_cols=70  Identities=19%  Similarity=0.377  Sum_probs=61.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .+++|||+|||+++|+++|+++|++||.|+.+++..+..  .+|    ||||+|++.++|++||+.|||+.+....
T Consensus        13 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~--~~g----~afV~f~~~e~a~~Ai~~l~g~~~~g~~   82 (95)
T d1x4aa1          13 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRG--GPP----FAFVEFEDPRDAEDAVYGRDGYDYDGYR   82 (95)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSSS--SSC----CEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEeccccc--ccc----eEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            357999999999999999999999999999999866542  123    9999999999999999999999997543

>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=99.68  E-value=6.6e-17  Score=121.95  Aligned_cols=73  Identities=21%  Similarity=0.242  Sum_probs=61.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      .++|||+|||+++|+++|+++|++||.|.+|+|+.++ ++..+|    ||||+|.+.++|++||+.+++ .|.. +.+.|
T Consensus        10 ~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg----~afV~f~~~~~A~~Ai~~~~~-~l~G-r~l~V   83 (103)
T d2cqda1          10 FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRG----YGFVTMADRAAAERACKDPNP-IIDG-RKANV   83 (103)
T ss_dssp             SSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCS----EEEEEESSHHHHHHHHTCSSC-EETT-EECEE
T ss_pred             CcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCC----eEEEEECCHHHHHHHHHHCCC-cCCC-EEEEE
Confidence            4679999999999999999999999999999999987 433334    999999999999999999886 5653 43333

>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=99.68  E-value=7e-17  Score=119.42  Aligned_cols=66  Identities=21%  Similarity=0.353  Sum_probs=58.7

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      .++||||+|||+++|+++|+++|++||.|.+++++.++ .+.    ++|||||+|.+.++|++|++.||+.
T Consensus         7 ~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~----~~g~afV~F~~~~~a~~ai~~l~~~   73 (98)
T d1x4ha1           7 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEH----SKGCAFAQFMTQEAAQKCLAAASLE   73 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCC----BCSEEEEEESSHHHHHHHHHHHCTT
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHhccccceeeeecccccccc----ccceEEEEEcCHHHHHHHHHHcccc
Confidence            46899999999999999999999999999999999887 333    3349999999999999999999843

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=8.7e-18  Score=126.51  Aligned_cols=71  Identities=23%  Similarity=0.336  Sum_probs=63.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .+||||+|||.++|+++|+++|++||.|.+|+|+.++.   .|+++|||||+|.+.++|++|++.|||..+...
T Consensus         8 ~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~---tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~   78 (104)
T d1p1ta_           8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRE---TGKPKGYGFCEYQDQETALSAMRNLNGREFSGR   78 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETT---TTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSS
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccccccccccc---eeccCCceEEEECCHHHHHHHHHHcCCCEECCE
Confidence            46899999999999999999999999999999999872   145566999999999999999999999988753

>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=99.67  E-value=4.6e-17  Score=116.16  Aligned_cols=66  Identities=18%  Similarity=0.253  Sum_probs=58.3

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +|||+|||+++||++|+++|++||.|.+|+|+.++ ++.    ++|||||+|.++++|++|++ +++..|..
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~----~kg~afV~f~~~~~a~~Al~-~~~~~l~G   67 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGR----SRGFGFVLFKESESVDKVMD-QKEHKLNG   67 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTB----CCSEEEEEESSHHHHHHHHH-TCCCCBTT
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCC----cCceEEEEECCHHHHHHHHh-cCCCEECC
Confidence            49999999999999999999999999999999987 333    33499999999999999997 68777654

>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=99.67  E-value=5.2e-17  Score=118.89  Aligned_cols=69  Identities=23%  Similarity=0.284  Sum_probs=62.5

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .++|||+|||.++++++|+++|++||.|.+|++..++     |    ||||+|++.++|++|++.|||..|..+...+
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~k-----~----~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V   76 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDK-----G----FGFIRLETRTLAEIAKVELDNMPLRGKQLRV   76 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETTT-----T----EEEEECSSSHHHHHHHHHHTTCCBTTBCCEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeeccc-----c----eEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            4689999999999999999999999999999998765     4    9999999999999999999999998644333

>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=99.67  E-value=7.1e-17  Score=121.81  Aligned_cols=68  Identities=25%  Similarity=0.450  Sum_probs=61.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .+||||+|||+++|+++|+++|++||.|.+|+|+.++ +++.+|    ||||+|.+.++|++|++ |||+.|..
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG----~afV~F~~~e~a~~A~~-l~g~~~~G   86 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKG----IAYVEFCEIQSVPLAIG-LTGQRLLG   86 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCC----CEEEEESCGGGHHHHHH-HTTEEETT
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccc----eEEEEECCHHHHHHHHH-HCCCEECC
Confidence            4789999999999999999999999999999999987 444444    99999999999999995 99998875

>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=99.67  E-value=1.8e-16  Score=118.20  Aligned_cols=74  Identities=22%  Similarity=0.279  Sum_probs=64.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece-E
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL-V  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~-~  210 (235)
                      +++|||+|||.++++++|+++|++||.|++|++.+++     +    ||||+|.+.++|++|++.|||..|..+...+ +
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            6899999999999999999999999999999998765     4    9999999999999999999999998754333 4


Q ss_pred             EEEe
Q 026648          211 VFYQ  214 (235)
Q Consensus       211 ~~~~  214 (235)
                      -+..
T Consensus        88 ~~ak   91 (97)
T d1whya_          88 DFAK   91 (97)
T ss_dssp             EECC
T ss_pred             EeCC
Confidence            3443

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.67  E-value=4.8e-17  Score=116.31  Aligned_cols=68  Identities=15%  Similarity=0.141  Sum_probs=60.7

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +||||+|||+++++++|+++|++||.|++|+|+.++.+.+     +||||+|.++++|++|+. ++|..|+...
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~-----~~afV~F~~~~~a~~Al~-~~~~~i~g~~   68 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNF-----RFARIEFARYDGALAAIT-KTHKVVGQNE   68 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSS-----EEEEEEESSHHHHHHHHT-TTTCEETTEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccc-----eEEEEEEcchHHhHHHHH-hcCcEECCEE
Confidence            5899999999999999999999999999999999885433     299999999999999995 8999887643

>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=99.67  E-value=2.6e-16  Score=118.00  Aligned_cols=69  Identities=14%  Similarity=0.181  Sum_probs=62.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLV  210 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~  210 (235)
                      ..+|||+|||++++++||+++|++||.|++|+|..+      |    ||||+|.+.++|++||+.|||..+..+...+.
T Consensus        15 ~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~~------g----~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~   83 (98)
T d1wg4a_          15 DFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQKD------G----MGMVEYLRKEDMEYALRKLDDTKFRSHEGETS   83 (98)
T ss_dssp             SCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEETT------T----EEEEEESSHHHHHHHHHHHSSEEEECTTSCEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhhccccccccccc------c----eEEEEECCHHHHHHHHHHhCCCEeCCeEEEEE
Confidence            578999999999999999999999999999998743      5    99999999999999999999999987555443

>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=99.67  E-value=1.7e-16  Score=119.18  Aligned_cols=73  Identities=21%  Similarity=0.223  Sum_probs=60.6

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .+.++|||+|||+++|+++|+++|++|| +++++++.++.  ..|.++|||||+|.+.++|++|+ .|||+.|....
T Consensus        13 ~p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~--~~g~~~g~afV~f~~~e~a~~~~-~~~~~~~~gr~   85 (104)
T d1wi8a_          13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPS--NPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKR   85 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSS--CTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeec--cCCCcceeeeEEECCHHHHHHHH-HcCCCEECCEE
Confidence            3458999999999999999999999998 88999888762  12345559999999999998776 59999987543

>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=99.67  E-value=5.4e-17  Score=117.25  Aligned_cols=68  Identities=18%  Similarity=0.313  Sum_probs=59.4

Q ss_pred             EEEcCCCCCCCHHHHHHhhcCCCCeEEE-EEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          135 LFVEGLPSDCSRREVAHIFRPFVGYKEV-RLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       135 LfVgNLP~~vteedL~~lF~~fG~I~~v-rl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      |||+|||+++|+++|+++|++||.|.++ +++.++ +    |+++|||||+|.+.++|++|++.|+|..+....
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~----g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~   70 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDT----GNSKGYAFINFASFDASDAAIEAMNGQYLCNRP   70 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTT----CSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEE
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccc----cccCceEEEEECCHHHHHHHHHhCCCcEECCEE
Confidence            8999999999999999999999999775 777776 3    344459999999999999999999999987543

>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=99.66  E-value=1.1e-16  Score=115.05  Aligned_cols=68  Identities=19%  Similarity=0.257  Sum_probs=60.6

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .++||||+|||  +|+++|+++|++||.|.+|++..++     |    ||||+|.+.++|+.|++.|||..+..+...+
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~~-----~----~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V   71 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPR-----N----CAFVTYEKMESADQAVAELNGTQVESVQLKV   71 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETTT-----T----EEEEECSSHHHHHHHHHHHTTCBCSSCBCEE
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhccCccceeeeccCC-----C----EEEEEEcccHHHHHHHHHhCCCEECCEEEEE
Confidence            46899999996  8999999999999999999998654     4    9999999999999999999999998654433

>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=99.66  E-value=3.7e-17  Score=119.68  Aligned_cols=65  Identities=18%  Similarity=0.194  Sum_probs=59.6

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      ++|||+|||+++|+++|+++|++||.|++++++.+      |    ||||+|.+.++|++||+.|||..+.....
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~------g----~afV~f~~~~~a~~Ai~~l~g~~~~g~~i   65 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD------G----TGVVEFVRKEDMTYAVRKLDNTKFRSHEG   65 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT------S----EEEEEESSHHHHHHHHHHHTTCBCCCTTS
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhccccccccccc------c----eeeEEeCCHHHHHHHHHHhCCCEECCcEe
Confidence            47999999999999999999999999999998764      4    99999999999999999999999876443

>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=99.66  E-value=1.4e-16  Score=113.85  Aligned_cols=69  Identities=13%  Similarity=0.223  Sum_probs=60.8

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ++|||+|||+++|+++|+++|++||.|.+++++.++..   +.++|||||+|.++++|++|++ |+|+.|...
T Consensus         3 r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~---~~~~g~afV~f~~~e~~~~al~-~~~~~l~Gr   71 (79)
T d1l3ka2           3 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGS---GKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGH   71 (79)
T ss_dssp             SEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTT---CCEEEEEEEEESSHHHHHHHHH-CSCCEETTE
T ss_pred             CEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCC---cccccEEEEEEcCHHHHHHHHH-hCCCEECCE
Confidence            68999999999999999999999999999999998721   3455699999999999999985 799988763

>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=99.66  E-value=5.3e-17  Score=123.19  Aligned_cols=73  Identities=19%  Similarity=0.210  Sum_probs=63.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      ..+|||+|||+++|+++|+++|++||.|++|+|..++.   +|    ||||+|.++++|++|++.|||+.|......+-+
T Consensus         7 ~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~~---~g----~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v   79 (108)
T d2adba1           7 VLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNN---QF----QALLQYADPVSAQHAKLSLDGQNIYNACCTLRI   79 (108)
T ss_dssp             EEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEETT---EE----EEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEE
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeCC---CC----eEEEEECCHHHHHHHHHHHCCCEeccCCcEEEE
Confidence            46899999999999999999999999999999998752   24    999999999999999999999998653334433

>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=99.65  E-value=1.6e-16  Score=115.96  Aligned_cols=69  Identities=14%  Similarity=0.188  Sum_probs=61.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .++|||+|||.++|+++|+++|++||.|++|+|+.++++    .++|||||+|.++++|++|++ ++|.++...
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~----~~kG~afV~f~~~e~a~~al~-~~~~~~~g~   74 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHK----AFKGSIFVVFDSIESAKKFVE-TPGQKYKET   74 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTC----CEEEEEEEEESCHHHHHHHHT-CCCCEETTE
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccC----CcceEEEEEEcCHHHHHHHHH-HCCCEECCE
Confidence            479999999999999999999999999999999887643    445599999999999999996 699888753

>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=99.65  E-value=1.8e-16  Score=117.95  Aligned_cols=72  Identities=19%  Similarity=0.304  Sum_probs=59.9

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEE--------EEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceE
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKE--------VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSN  202 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~--------vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i  202 (235)
                      .+++|||+|||.++|+++|+++|++||.|..        +.+..++   ..|.+++||||+|.++++|++|++.|||+.+
T Consensus         7 ~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~---~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~   83 (101)
T d2cpea1           7 DNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDK---ETGKPKGDATVSYEDPPTAKAAVEWFDGKDF   83 (101)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCT---TTCSBCSEEEEEBSSHHHHHHHHHHHTTCEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeecc---ccccccceeeEEecCHHHHHHHHHHhCCCEE
Confidence            3689999999999999999999999999853        4445544   1134555999999999999999999999998


Q ss_pred             eee
Q 026648          203 IIC  205 (235)
Q Consensus       203 ~~~  205 (235)
                      ...
T Consensus        84 ~gr   86 (101)
T d2cpea1          84 QGS   86 (101)
T ss_dssp             TTE
T ss_pred             CCE
Confidence            753

>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=99.65  E-value=6.4e-17  Score=118.16  Aligned_cols=72  Identities=10%  Similarity=0.100  Sum_probs=59.3

Q ss_pred             CCeEEEcCCCCCCC-HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCS-RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vt-eedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++|||+|||+++| |++|+++|++||.|++|+|+.++.  ..|.++|||||+|.+.++|++|++ |||+.+....
T Consensus         4 ~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~--~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~   76 (86)
T d2ghpa3           4 GREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQK--EHSFNNCCAFMVFENKDSAERALQ-MNRSLLGNRE   76 (86)
T ss_dssp             TTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC-----CCCEEEEEEESSHHHHHHHGG-GTTEEETTEE
T ss_pred             CCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccC--CccccceeeeEEECCHHHHHHHHh-cCCCEECCEE
Confidence            57999999999986 556999999999999999987541  113445599999999999999996 9999987543

>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=99.64  E-value=9.4e-17  Score=113.40  Aligned_cols=66  Identities=20%  Similarity=0.270  Sum_probs=59.1

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +|||+|||+++||++|+++|++||.|..+.++.++ ++.    +++||||+|.+.++|++|++ |||+.|..
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~----~~~~afV~F~~~~~a~~al~-~~~~~l~g   67 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNR----HRGFGFVTFESEDIVEKVCE-IHFHEINN   67 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTT----SCCEEEEECSCHHHHHHHHH-CSSCCBTT
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccc----cCceeEEEECCHHHHHHHHh-cCCCEECC
Confidence            49999999999999999999999999999998887 333    34499999999999999996 89998875

>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=99.64  E-value=4e-16  Score=114.00  Aligned_cols=62  Identities=18%  Similarity=0.326  Sum_probs=56.5

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCce
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQS  201 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~  201 (235)
                      ++++|||+|||.++++++|+++|++||.|.++++..++     |    ||||+|.+.++|++|++.+++..
T Consensus         7 Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~~-----~----~afV~f~~~e~A~~a~~~~~~~~   68 (88)
T d2cq1a1           7 PSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGK-----N----QAFLELATEEAAITMVNYYSAVT   68 (88)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHHHSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcccccccccccccc-----e----EEEEEeCCHHHHHHHHHHHccCC
Confidence            47899999999999999999999999999999998765     4    99999999999999999876543

>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=99.64  E-value=2.6e-17  Score=122.99  Aligned_cols=79  Identities=15%  Similarity=0.199  Sum_probs=66.0

Q ss_pred             CCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeec
Q 026648          130 DASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSN  208 (235)
Q Consensus       130 d~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~  208 (235)
                      ++++||||+|||.++++++|+++|++||.|..++++.++ ++    ++++||||+|.+.++|++|++.|||++|.. +.+
T Consensus        16 ~ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g----~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g-~~l   90 (102)
T d2cpxa1          16 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTG----RMRGQAFITFPNKEIAWQALHLVNGYKLYG-KIL   90 (102)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECS----SSCSEEEEECSSHHHHHHHHHHSTTCBCSS-CBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccc----cccccceEEeccHHHHHHHHHHhCCCEECC-EEE
Confidence            347899999999999999999999999999999888775 33    334499999999999999999999999864 333


Q ss_pred             eEEEE
Q 026648          209 LVVFY  213 (235)
Q Consensus       209 ~~~~~  213 (235)
                      .|-++
T Consensus        91 ~V~~a   95 (102)
T d2cpxa1          91 VIEFG   95 (102)
T ss_dssp             EEEEC
T ss_pred             EEEeC
Confidence            34333

>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=99.64  E-value=2.1e-16  Score=119.63  Aligned_cols=68  Identities=21%  Similarity=0.304  Sum_probs=59.8

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .++|||+|||+++|+++|+++|++||.|.+++|+.++ ++..+|    ||||+|.+.++|++|++ ++|+.|..
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg----~aFV~f~~~~~a~~al~-~~~~~l~G   88 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRG----FGFVTFSSMAEVDAAMA-ARPHSIDG   88 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCS----EEEEECSSHHHHHHHHT-SCSEEETT
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccC----eEEEEECCHHHHHHHHH-hCCCeECC
Confidence            4799999999999999999999999999999999987 433334    99999999999999996 68877754

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.3e-16  Score=120.19  Aligned_cols=70  Identities=17%  Similarity=0.220  Sum_probs=61.6

Q ss_pred             CCeEEEcCCCC-CCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPS-DCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~-~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      +++|||+|||+ .+|+++|+++|++||.|++|+|+.++   + |    ||||+|++.++|++|++.|||..|......+
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   72 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---K-E----NALVQMADGNQAQLAMSHLNGHKLHGKPIRI   72 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT---S-C----CEEEEESCHHHHHHHHHHHTTCBCSSSBCEE
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc---c-c----eEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            57999999965 59999999999999999999999875   2 4    9999999999999999999999988643333

>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=99.63  E-value=1.5e-16  Score=117.15  Aligned_cols=72  Identities=19%  Similarity=0.288  Sum_probs=60.2

Q ss_pred             CCeEEEcCCCCCCCHHHHH----HhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          132 SSTLFVEGLPSDCSRREVA----HIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~----~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      ++||||+|||.++|++||+    ++|++||.|.+|++..+. +++ |    ||||+|++.++|.+|++.|||..+.....
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 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSL-KMR-G----QAFVIFKEVSSATNALRSMQGFPFYDKPM   76 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHHH-HHT-T----CEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeeec-cCC-C----ceEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            6899999999999999986    468999999999986542 112 3    99999999999999999999999886443


Q ss_pred             ce
Q 026648          208 NL  209 (235)
Q Consensus       208 ~~  209 (235)
                      .+
T Consensus        77 ~v   78 (91)
T d1nu4a_          77 RI   78 (91)
T ss_dssp             EE
T ss_pred             EE
Confidence            33

>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=99.63  E-value=5.6e-16  Score=116.10  Aligned_cols=64  Identities=20%  Similarity=0.299  Sum_probs=57.2

Q ss_pred             CCCeEEEcCCC-CCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLP-SDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP-~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .+++|||+||| ..+++++|+++|++||.|++|+|.      + |    ||||+|++.++|++||+.|||+.|...
T Consensus        14 ~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~------r-g----~aFV~f~~~~~A~~Ai~~lng~~~~g~   78 (98)
T d1wf2a_          14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH------K-G----FAFVQYVNERNARAAVAGEDGRMIAGQ   78 (98)
T ss_dssp             CCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEE------T-E----EEEEEESSHHHHHHHHHTTTTCEETTE
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEe------C-C----eEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            35789999996 578899999999999999999983      1 4    999999999999999999999998753

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.63  E-value=9.7e-16  Score=115.47  Aligned_cols=65  Identities=15%  Similarity=0.162  Sum_probs=58.1

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++++|||+|||.++||++|+++|++||.|++|++.+++     |    +|||+|++.++|+.|++.|++..+..
T Consensus        14 ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~k-----~----~AfV~f~~~e~A~~ai~~~~~~~~~~   78 (104)
T d1wexa_          14 VSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFK-----R----QALVEFENIDSAKECVTFAADVPVYI   78 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHHHSCCBS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEecc-----e----eEEEEeCCHHHHHHHHHHHcCCCcEE
Confidence            37899999999999999999999999999999998664     5    99999999999999999886554443

>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=99.62  E-value=8.5e-17  Score=115.31  Aligned_cols=65  Identities=18%  Similarity=0.343  Sum_probs=56.2

Q ss_pred             eEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          134 TLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       134 tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      +|||+|||+++|+++|+++|++||.|++|+|+.++ ++    +++|||||+|.+.++|++||+. ++..|.
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~----~~rG~~FV~f~~~~~a~~al~~-~~~~i~   66 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTN----KRRGFCFITFKEEEPVKKIMEK-KYHNVG   66 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTC----CTTCCEEEEESSSHHHHHHTTC-SSCCBT
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCccccccccccccc----ccccEEEEEECCHHHHHHHHhh-CCCEEC
Confidence            59999999999999999999999999999999987 33    3444999999999999999975 444443

>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=99.62  E-value=3.5e-17  Score=121.13  Aligned_cols=72  Identities=18%  Similarity=0.230  Sum_probs=61.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLS  207 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~  207 (235)
                      ...+|||+|||+++|+++|+++|++||.|..++|+.++++..+|    ||||+|.+.++|++||+ |||..|.....
T Consensus        12 ~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg----~afv~F~~~e~a~~Al~-~~g~~~~g~~i   83 (91)
T d1fjeb1          12 TPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRK----FGYVDFESAEDLEKALE-LTGLKVFGNEI   83 (91)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTT----EEEEEESSHHHHHHHHH-GGGEEETTEEE
T ss_pred             CCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccE----EeEEeeCCHHHHHHHHh-cCCcEECCEEE
Confidence            35799999999999999999999999999999887666433334    99999999999999996 99998886433

>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=99.62  E-value=1.2e-16  Score=115.29  Aligned_cols=65  Identities=18%  Similarity=0.293  Sum_probs=58.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc-eEeeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ-SNIICL  206 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~-~i~~~r  206 (235)
                      ++|||+|||.++|+++|+++|++||.|.+++++..+     |    ||||+|.+.++|++|++.|||. ++....
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~r-----g----~aFV~f~~~~~A~~Ai~~lng~~~~~G~~   67 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKS-----G----YAFVDYPDQNWAIRAIETLSGKVELHGKI   67 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEET-----T----EEEECCSCHHHHHHHHHHHTTTCEETTEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEeccc-----c----eEEEEECCHHHHHHHHHHhCCCeEECCEE
Confidence            479999999999999999999999999888887764     5    9999999999999999999996 566543

>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=99.62  E-value=3.9e-16  Score=114.57  Aligned_cols=72  Identities=21%  Similarity=0.272  Sum_probs=58.4

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      +++|||+|||.++|++||+++|++|| ++.+.+...+     |    ||||+|.+.++|++|++.|||+++.. +.+.|-
T Consensus         5 s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~~~k-----g----~afV~f~~~~~A~~Ai~~ln~~~~~G-~~l~V~   73 (88)
T d1wg1a_           5 SSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVDRNK-----R----TAFVTLLNGEQAQNAIQMFHQYSFRG-KDLIVQ   73 (88)
T ss_dssp             CCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEEGGG-----T----EEEECCSCHHHHHHHHHHHTTEEETT-EEEEEE
T ss_pred             CCEEEEeCCCCccChHHHHHHHHhcC-ceeeeeeccC-----C----ceEEEECCHHHHHHHHHHhCCCEECC-EEEEEE
Confidence            57899999999999999999999999 4444444332     4    99999999999999999999999875 333344


Q ss_pred             EEe
Q 026648          212 FYQ  214 (235)
Q Consensus       212 ~~~  214 (235)
                      +..
T Consensus        74 ~a~   76 (88)
T d1wg1a_          74 LQP   76 (88)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            444

>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=99.61  E-value=1.3e-15  Score=110.67  Aligned_cols=66  Identities=23%  Similarity=0.206  Sum_probs=59.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      .++|||+|||.++|+++|+++|++||.|..+++...+     |    ||||+|.++++|+.|++.|||+.|..+.
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~~r-----g----~afV~f~~~~~A~~Ai~~l~~~~i~g~~   73 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIR-----D----YAFVHFSNREDAVEAMKALNGKVLDGSP   73 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECS-----S----EEEEEESSHHHHHHHHHHHSSEEETTEE
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEcccc-----E----EEEEEeCCHHHHHHHHHHcCCCEECCEE
Confidence            4799999999999999999999999999888875543     4    9999999999999999999999988543

>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=99.60  E-value=2.1e-15  Score=113.46  Aligned_cols=70  Identities=20%  Similarity=0.264  Sum_probs=58.4

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC-CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE-SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk-~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      ...+|||+|||+++|++||+++|+++|.+..+.++.++ .+.++|    ||||+|.++++|++|++ +++..|...
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG----~afV~F~~~e~a~~a~~-~~~~~i~gR   84 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTG----EAFVQFASQEIAEKALK-KHKERIGHR   84 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCS----EEEEEESSHHHHHHHHT-TTTCCSSSS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcce----EEEEEeCCHHHHHHHHh-hCCCEEcce
Confidence            35689999999999999999999999998886555554 444444    99999999999999996 899888653

>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=99.60  E-value=3.7e-16  Score=116.08  Aligned_cols=71  Identities=21%  Similarity=0.300  Sum_probs=59.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .+++|||+|||+++|+++|+++|++||.|..++.   .     |.+++||||+|.+.++|++|++.|||..|......+
T Consensus        15 ~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~---~-----~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V   85 (96)
T d1fjca_          15 AARTLLAKNLSFNITEDELKEVFEDALEIRLVSQ---D-----GKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSL   85 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEE---T-----TEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcccceeeee---c-----CccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEE
Confidence            3689999999999999999999999998766542   2     234459999999999999999999999988643333

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.60  E-value=5.8e-16  Score=112.40  Aligned_cols=74  Identities=23%  Similarity=0.196  Sum_probs=62.2

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEE-EEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~-vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      .++|||+|||++++++||+++|+.||.+.. +.+..+++    |.++|||||+|.++++|++|++.|||+.|..+...+
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~----g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v   83 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEK----GMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKL   83 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSS----SCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCC----CCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEE
Confidence            367999999999999999999999999876 45555554    345559999999999999999999999998654433

>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=99.60  E-value=4.5e-16  Score=115.51  Aligned_cols=71  Identities=20%  Similarity=0.215  Sum_probs=60.0

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCC-eEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVG-YKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~-I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +++|||+|||.++|+++|+++|++||. |.+|+|+.+...  .|.++|||||+|.++++|+.|++.|++..+..
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~--~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~   72 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAAD--KMKNRGFAFVEYESHRAAAMARRKLMPGRIQL   72 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCT--TTTTCCEEEEEESSHHHHHHHHTTTTTCCSCB
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccc--cccCCCeEEEEEcCHHHHHHHHHHHcCCCeEE
Confidence            468999999999999999999999995 999999987521  13444599999999999999999998766544

>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=99.60  E-value=6.2e-16  Score=116.64  Aligned_cols=65  Identities=15%  Similarity=0.232  Sum_probs=59.4

Q ss_pred             CCCeEEEcC--CCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEG--LPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgN--LP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++++|||.|  ||.++|+++|+++|++||.|++|+++.++     |    ||||+|.+.++|++|++.|||++|..
T Consensus        17 pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~k-----~----~aFV~f~~~e~A~~A~~~lng~~i~~   83 (101)
T d2cq2a1          17 ATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNK-----P----YSFARYRTTEESKRAYVTLNGKEVVD   83 (101)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTTC-----S----CEEEEESSHHHHHHHHHHTTTCEEEC
T ss_pred             CCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccCc-----c----EEEEEECCHHHHHHHHHHhCCCCCCC
Confidence            467899955  99999999999999999999999988765     4    99999999999999999999999854

>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=99.59  E-value=9.8e-16  Score=115.06  Aligned_cols=67  Identities=16%  Similarity=0.200  Sum_probs=58.7

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..+|||+|||+++|++||+++|+.|+ +.+|+++.+..+    .++|||||+|.++++|++|++ ||+.+|..
T Consensus        15 ~~~v~v~nLp~~~te~dl~~~F~~~~-~~~v~~~~~~~g----~~~G~afVeF~~~~~a~~Al~-~~~~~i~g   81 (102)
T d1weza_          15 GHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPDG----RVTGEADVEFATHEDAVAAMA-KDKANMQH   81 (102)
T ss_dssp             SCEEEEESCCTTCCHHHHHHSSCSCC-CSEEEEEESSSS----CEEEEEEEECSSSHHHHHHHT-TSSCCSSS
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHhccC-cceeeeEEecCC----cceEEEEEEECCHHHHHHHHH-cCCCEECC
Confidence            57999999999999999999999996 668888888643    344599999999999999986 89998885

>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=99.56  E-value=6e-15  Score=105.17  Aligned_cols=61  Identities=20%  Similarity=0.368  Sum_probs=53.8

Q ss_pred             EEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       135 LfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      |||+|||++++++||+++|++|| +..+++...+     |    ||||+|.+.++|++|++.|||+.+...
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~~~~-----g----~afv~f~~~~~A~~Ai~~ln~~~~~g~   61 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDKYK-----G----TAFVTLLNGEQAEAAINTFHQSRLRER   61 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEETTT-----T----EEEEEESSHHHHHHHHHHHTTEESSSC
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeecccc-----e----eEEEEECCHHHHHHHHHHhCCccCCCC
Confidence            79999999999999999999998 6666654332     4    999999999999999999999998853

>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=99.55  E-value=1.5e-15  Score=111.23  Aligned_cols=63  Identities=19%  Similarity=0.200  Sum_probs=54.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      +++|||+|||+++|+++|+++|++||.|.+|++..+.    +|    ||||+|++.++|++|+.  +++.|..
T Consensus         5 s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~~----~g----fafV~f~~~~~a~~a~~--~~~~i~g   67 (88)
T d1wf0a_           5 SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPF----RA----FAFVTFADDQIAQSLCG--EDLIIKG   67 (88)
T ss_dssp             CCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSSC----CS----CCEEECSCHHHHHHTTT--CEEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeecc----Cc----eEEEEECCHHHHHHHHh--CCCEECC
Confidence            5799999999999999999999999999999876442    24    99999999999999985  6666654

>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=99.55  E-value=4.4e-15  Score=111.23  Aligned_cols=73  Identities=11%  Similarity=0.116  Sum_probs=59.9

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEE-EEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeece
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKE-VRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNL  209 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~-vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~  209 (235)
                      ..+|||+|||+++|++||+++|+.||.|.. +.++.++.+..+|    ||||+|.+.++|++|++ |||..|......+
T Consensus         8 ~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G----~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V   81 (103)
T d2cpya1           8 KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLG----QALVQFKNEDDARKSER-LHRKKLNGREAFV   81 (103)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSS----CEEEECSSHHHHHHHGG-GCSEEETTEEEEE
T ss_pred             ceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCc----cEEEEECCHHHHHHHHh-cCCCeECCcEEEE
Confidence            468999999999999999999999999887 4555555443344    99999999999999996 8999887643333

>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=99.53  E-value=1.4e-14  Score=108.35  Aligned_cols=75  Identities=15%  Similarity=0.172  Sum_probs=61.2

Q ss_pred             CCCCeEEEcCCCCC-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHH--hcCceEeeee
Q 026648          130 DASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDA--LQGQSNIICL  206 (235)
Q Consensus       130 d~~~tLfVgNLP~~-vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~--LnG~~i~~~r  206 (235)
                      ..+++|||+|||.+ +|+++|.++|++||.|.+|+++.++     |    ||||+|.+.++|++|++.  +++..+.. +
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~k-----~----~afV~f~~~~~A~~Ai~~~~~~~~~~~g-r   85 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMK-----S----QAFIEMETREDAMAMVDHCLKKALWFQG-R   85 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTT-----T----EEEEECSSHHHHHHHHHHHHHSCCCSSS-S
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeecC-----C----cEEEEecchHHHHHHHHHHhcCCceECC-E
Confidence            34689999999986 8999999999999999999998765     5    999999999999999984  55655553 3


Q ss_pred             eceEEEEe
Q 026648          207 SNLVVFYQ  214 (235)
Q Consensus       207 ~~~~~~~~  214 (235)
                      ...|.++.
T Consensus        86 ~l~V~~s~   93 (99)
T d1x4fa1          86 CVKVDLSE   93 (99)
T ss_dssp             CCEEEEEC
T ss_pred             EEEEEEcC
Confidence            34444544

>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=99.53  E-value=8.4e-15  Score=107.74  Aligned_cols=74  Identities=14%  Similarity=0.151  Sum_probs=61.3

Q ss_pred             CCCeEEEcCCCCC-CCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhc--CceEeeeee
Q 026648          131 ASSTLFVEGLPSD-CSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ--GQSNIICLS  207 (235)
Q Consensus       131 ~~~tLfVgNLP~~-vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln--G~~i~~~r~  207 (235)
                      ++++|||+|||.. +|++||.+||++||.|.+|+++.++     +    +|||+|++.++|+.|++.|+  +..+.. +.
T Consensus         7 ~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k-----~----~afV~f~~~~~A~~A~~~l~~~~~~~~g-r~   76 (89)
T d1x4da1           7 TRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI-----N----EAFIEMATTEDAQAAVDYYTTTPALVFG-KP   76 (89)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS-----S----CEEEEESSHHHHHHHHHHHHHSCCEETT-EE
T ss_pred             CCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccc-----e----EEEEEEcchhhHHHHHHHHhhCCCccCC-ce
Confidence            4689999999986 8899999999999999999999875     4    99999999999999999875  444553 34


Q ss_pred             ceEEEEe
Q 026648          208 NLVVFYQ  214 (235)
Q Consensus       208 ~~~~~~~  214 (235)
                      ..+.++.
T Consensus        77 l~V~~s~   83 (89)
T d1x4da1          77 VRVHLSQ   83 (89)
T ss_dssp             CEEEEEC
T ss_pred             EEEEECC
Confidence            4444554

>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=99.50  E-value=6.3e-15  Score=112.42  Aligned_cols=80  Identities=18%  Similarity=0.220  Sum_probs=63.2

Q ss_pred             CCCCCCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeC-CCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeee
Q 026648          127 LPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK-ESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIIC  205 (235)
Q Consensus       127 ~ppd~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~d-k~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~  205 (235)
                      .|.....+|||+|||+++|++||+++|+.||.+..+.++.+ ..    |.++|||||+|.+.++|++|++ |||..|..-
T Consensus        13 ~~~~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~----g~~~G~afVeF~~~e~a~~al~-~~~~~i~gR   87 (112)
T d1wela1          13 SPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPN----GKATGEGFVEFRNEADYKAALC-RHKQYMGNR   87 (112)
T ss_dssp             SCCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTT----SSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTS
T ss_pred             CCCCCCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcc----cceeeEEEEEECCHHHHHHHHH-cCCCcCCCE
Confidence            34445689999999999999999999999999877554444 33    4455699999999999999996 899988764


Q ss_pred             eeceEE
Q 026648          206 LSNLVV  211 (235)
Q Consensus       206 r~~~~~  211 (235)
                      ...|..
T Consensus        88 ~i~V~~   93 (112)
T d1wela1          88 FIQVHP   93 (112)
T ss_dssp             CBEEEE
T ss_pred             EEEEEE
Confidence            444433

>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=99.46  E-value=5.5e-14  Score=107.46  Aligned_cols=70  Identities=11%  Similarity=0.056  Sum_probs=60.9

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCH-HHHHHHHHHhcCceEeeeeeceEE
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSP-AHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~-~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      -.+||+|||.++|+++|+++|++||.|.+|+|+.++     |    ||||.|.++ ++|..|+..|++..+.+....+-+
T Consensus        12 ~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~k-----g----~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~   82 (113)
T d1owxa_          12 LLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGA-----K----EGIILFKEKAKEALGKAKDANNGNLQLRNKEVTW   82 (113)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTC-----S----EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEE
T ss_pred             eEEEECCCCCCCCHHHHHHHHHhcCChheEEEecCC-----c----eEEEEecCcHHHHHHHHHHhcCCceecCceEEEE
Confidence            457999999999999999999999999999999764     5    999999996 688999999999988875544433

>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=99.46  E-value=3.6e-16  Score=114.59  Aligned_cols=73  Identities=14%  Similarity=0.149  Sum_probs=58.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCC--CCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKE--SRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk--~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      ++|||+|||+++||++|+++|++||.+..+.+....  .....++++|||||+|.++++|++|++ |||+.+....
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~   76 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQS   76 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSSSC
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECCEE
Confidence            589999999999999999999999998877665332  001112344499999999999999985 9999987643

>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=99.44  E-value=2e-14  Score=108.81  Aligned_cols=73  Identities=22%  Similarity=0.175  Sum_probs=60.5

Q ss_pred             CCeEEEcCCCCCC-C----HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeee
Q 026648          132 SSTLFVEGLPSDC-S----RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICL  206 (235)
Q Consensus       132 ~~tLfVgNLP~~v-t----eedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r  206 (235)
                      +++|||+||+.++ +    +++|+++|++||.|+++++.+.+     |    ||||+|.+.++|++|++.|||+.|.. +
T Consensus         5 ~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k~~-----~----~afV~f~~~~~A~~Ai~~lng~~~~g-~   74 (104)
T d1weya_           5 SSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSF-----K----RVRINFSNPLSAADARLRLHKTEFLG-K   74 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTT-----T----EEEEECSSTTHHHHHHHTSTTSEETT-E
T ss_pred             CceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEecCC-----C----EEEEEECCHHHHHHHHHHhcccccCC-C
Confidence            5799999999886 3    35699999999999999998654     4    99999999999999999999999875 3


Q ss_pred             eceEEEEe
Q 026648          207 SNLVVFYQ  214 (235)
Q Consensus       207 ~~~~~~~~  214 (235)
                      .+.|.++.
T Consensus        75 ~l~v~~a~   82 (104)
T d1weya_          75 EMKLYFAQ   82 (104)
T ss_dssp             ECEEECCC
T ss_pred             EeEEeecc
Confidence            33344443

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=3.4e-13  Score=108.54  Aligned_cols=70  Identities=13%  Similarity=0.227  Sum_probs=61.0

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ..++|||+|||.++|+++|+++|+.||.|..++|+.++.   .|.++|||||+|.++++|.+|++ +++..+..
T Consensus        96 ~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~---~~~~~g~~fV~f~~~e~A~~Al~-~~~~~~~G  165 (183)
T d1u1qa_          96 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRG---SGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNG  165 (183)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT---TCCEEEEEEEEESCHHHHHHHHT-SSCEEETT
T ss_pred             ccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccc---cCccceeEEEEECCHHHHHHHHH-hCCCeECC
Confidence            357999999999999999999999999999999999872   13455699999999999999997 67776654

>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=99.36  E-value=1.6e-13  Score=110.49  Aligned_cols=67  Identities=15%  Similarity=0.248  Sum_probs=57.8

Q ss_pred             CCCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCc
Q 026648          131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQ  200 (235)
Q Consensus       131 ~~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~  200 (235)
                      ..+||||+|||+++|+++|+++|++||.|++++++.+..   .|.++|||||+|.+.++|++|++.+++.
T Consensus         5 ~~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~---~~~~~g~afv~f~~~~~a~~a~~~~~~~   71 (183)
T d1u1qa_           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPN---TKRSRGFGFVTYATVEEVDAAMNARPHK   71 (183)
T ss_dssp             HHHEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTT---TCCEEEEEEEEESSHHHHHHHHHTCSCE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeeccc---CCCccCceecccCCHHHHHHHHHhcCCc
Confidence            357999999999999999999999999999999998861   1344559999999999999999875543

>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=99.33  E-value=6.5e-14  Score=105.97  Aligned_cols=75  Identities=9%  Similarity=-0.003  Sum_probs=64.1

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEEE
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVVF  212 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~~  212 (235)
                      +.++|++++.+++|++|+++|++||.|++|+|+.+++    |.++|||||+|.+.++|++|++.|||..+.. +...|-+
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~----~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~g-r~i~v~~  102 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLG----DHLVGNVYVKFRREEDAEKAVIDLNNRWFNG-QPIHAEL  102 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS----SSSEEEEEEEESCHHHHHHHHHHHTTCEETT-EECCEEE
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCC----CCEeeEEEEEEechhHHHHHHHHHCCCEECC-EEEEEEE
Confidence            4589999999999999999999999999999987764    3455599999999999999999999999875 4444443

>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=99.30  E-value=2e-12  Score=93.74  Aligned_cols=62  Identities=13%  Similarity=0.125  Sum_probs=54.3

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      .+.|+|.+||++.+++.|+ .|++||.|.++++..++     |    ||||+|.++++|++|++ +||..+..
T Consensus         4 ~~wV~V~G~p~~~~~~il~-~F~~~G~I~~~~~~~~~-----~----~~fV~f~~~~~A~~Al~-~nG~~~~g   65 (81)
T d1wwha1           4 DTWVTVFGFPQASASYILL-QFAQYGNILKHVMSNTG-----N----WMHIRYQSKLQARKALS-KDGRIFGE   65 (81)
T ss_dssp             GGEEEEECCCGGGHHHHHH-HHHTTSCEEEEEECSSS-----S----EEEEEESSHHHHHHHHT-TTTCEETT
T ss_pred             ccEEEEECCChHHHHHHHH-HHHhhhhhheEEecCCC-----C----EEEEEEcccHHHHHHHh-cCCCeECC
Confidence            3689999999999976665 79999999999987554     4    99999999999999996 89998865

>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=99.24  E-value=8.9e-12  Score=92.97  Aligned_cols=77  Identities=17%  Similarity=0.261  Sum_probs=64.6

Q ss_pred             CCCeEEEcCC--CCCCC---------HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcC
Q 026648          131 ASSTLFVEGL--PSDCS---------RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQG  199 (235)
Q Consensus       131 ~~~tLfVgNL--P~~vt---------eedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG  199 (235)
                      .+++|+|+||  |.++.         ++||++.|++||.|.+|++..++   ..|    ||||+|++.++|++|++.|||
T Consensus         7 ~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~~---~~G----~~fV~f~~~e~A~~A~~~lng   79 (99)
T d2dita1           7 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDRH---PDG----VASVSFRDPEEADYCIQTLDG   79 (99)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETTC---TTC----EEEEECSCHHHHHHHHHHSTT
T ss_pred             CccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCCC---Ccc----EEEEEECCHHHHHHHHHHhCC
Confidence            4689999999  65432         36899999999999999987764   225    999999999999999999999


Q ss_pred             ceEeeeeeceEEEEec
Q 026648          200 QSNIICLSNLVVFYQI  215 (235)
Q Consensus       200 ~~i~~~r~~~~~~~~~  215 (235)
                      ..+.. |...|-+|++
T Consensus        80 ~~~~g-r~i~v~~~~g   94 (99)
T d2dita1          80 RWFGG-RQITAQAWDG   94 (99)
T ss_dssp             CEETT-EECEEEECCS
T ss_pred             cEECC-EEEEEEEeCC
Confidence            99885 7777888874

>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=99.15  E-value=2.7e-11  Score=90.91  Aligned_cols=82  Identities=15%  Similarity=0.119  Sum_probs=64.7

Q ss_pred             CCeEEEcCC--CCCCC--------HHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCce
Q 026648          132 SSTLFVEGL--PSDCS--------RREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQS  201 (235)
Q Consensus       132 ~~tLfVgNL--P~~vt--------eedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~  201 (235)
                      ++.|.|.|+  |.++.        .+||++.|++||.|++|.|+++...... ...|++||+|.+.++|.+|++.|||..
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 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEV-PGCGKIFVEFTSVFDCQKAMQGLTGRK   82 (104)
T ss_dssp             CSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSC-TTCCEEEEEESCHHHHHHHHHHHSSCC
T ss_pred             CcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCcc-CCceEEEEEECCHHHHHHHHHHHCCCE
Confidence            689999999  55543        3578999999999999999876522111 123499999999999999999999998


Q ss_pred             EeeeeeceEEEEec
Q 026648          202 NIICLSNLVVFYQI  215 (235)
Q Consensus       202 i~~~r~~~~~~~~~  215 (235)
                      +.. |...|.+++.
T Consensus        83 f~g-R~v~v~f~~~   95 (104)
T d1o0pa_          83 FAN-RVVVTKYCDP   95 (104)
T ss_dssp             SSS-SCCEEEEECH
T ss_pred             ECC-eEEEEEEcCH
Confidence            875 7777778873

>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=97.16  E-value=0.001  Score=48.25  Aligned_cols=70  Identities=11%  Similarity=0.230  Sum_probs=58.0

Q ss_pred             CeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCc-eEEEEEecCHHHHHHHHHHhcCceEee
Q 026648          133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPL-ILCFVDFVSPAHAATAMDALQGQSNII  204 (235)
Q Consensus       133 ~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~-~faFVeF~s~~~A~~Ai~~LnG~~i~~  204 (235)
                      ++|.|+.||+..||+++.+.++..+.+........+...  +.+. --|+|.|.+.++...-.+.++|+....
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~--~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D   72 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSL--YPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSS--TTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCC--CCCcceEEEEEeCCHHHHHHHHHHcCCcEEEc
Confidence            589999999999999999999999999888877776111  1111 358999999999999999999997654

>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=95.67  E-value=0.014  Score=40.21  Aligned_cols=63  Identities=17%  Similarity=0.091  Sum_probs=50.8

Q ss_pred             CCCHHHH----HHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEeeeeeceEE
Q 026648          143 DCSRREV----AHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNIICLSNLVV  211 (235)
Q Consensus       143 ~vteedL----~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~~~r~~~~~  211 (235)
                      ...+.||    ..+|++++.|.++.|..-..+..      .|-|.-.+.++|..|++.|+-++|...|..+.+
T Consensus         3 ~L~~kelqq~L~~~f~~h~~V~sv~l~~~~dg~~------~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~   69 (73)
T d2dgxa1           3 RLSRKELQQLLQEAFARHGKVKSVELSPHTDYQL------KAVVQMENLQDAIGAVNSLHRYKIGSKKILVSL   69 (73)
T ss_dssp             TSCHHHHHHHHHHHHHHHSCEEEEEECSCCSTTC------CEEEEESSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             cCCHHHHHHHHHHHHHhheeEEEEEEEeccCCcE------EEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEE
Confidence            3445554    56799999999999877654433      699999999999999999999999988876654

>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=94.92  E-value=0.061  Score=39.09  Aligned_cols=56  Identities=13%  Similarity=0.355  Sum_probs=47.6

Q ss_pred             CCeEEEcCCCCCCCHHHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhc
Q 026648          132 SSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQ  198 (235)
Q Consensus       132 ~~tLfVgNLP~~vteedL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~Ln  198 (235)
                      ...+|.=.+|.+-...||.+||++||.| .|-.+.+.          -|||.-.+.++|+.++..+.
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            3579999999999999999999999986 45555553          79999999999999887655

>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=93.29  E-value=0.027  Score=40.63  Aligned_cols=60  Identities=17%  Similarity=0.187  Sum_probs=46.9

Q ss_pred             CeEEEcCCCCCCCH---------HHHHHhhcCCCCeEEEEEeeCCCCCCCCCCceEEEEEecCHHHHHHHHHHhcCceEe
Q 026648          133 STLFVEGLPSDCSR---------REVAHIFRPFVGYKEVRLVSKESRHPGGDPLILCFVDFVSPAHAATAMDALQGQSNI  203 (235)
Q Consensus       133 ~tLfVgNLP~~vte---------edL~~lF~~fG~I~~vrl~~dk~~~~gG~~~~faFVeF~s~~~A~~Ai~~LnG~~i~  203 (235)
                      -||.|.-...+..+         .+|-+.|.+||+|.=||++.+           --.|.|.+-+.|.+|++ |+|.++.
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-----------QMLVTFADSHSALSVLD-VDGMKVK   83 (95)
T ss_dssp             CEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETT-----------EEEEECSCSHHHHHHHH-GGGSEET
T ss_pred             cEEEEEeccCCccccccCCHHHHHHHHHHHhhCCeEEEEEEeCC-----------eEEEEECCcHHHHHHhc-cCCeEEc
Confidence            48888665544433         367788999999999999987           46899999999999986 4777665


Q ss_pred             e
Q 026648          204 I  204 (235)
Q Consensus       204 ~  204 (235)
                      .
T Consensus        84 G   84 (95)
T d1ufwa_          84 G   84 (95)
T ss_dssp             T
T ss_pred             c
Confidence            4