Psyllid ID: psy8001

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170--
Protein Sequence
MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRSYR
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccHHHHHHHHHHcccccEEEEEEEEcccccccccEEEEEEccHHHHHHHHHHccccccccccEEEEccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEccccEcccHHHHHHHHHHcccccEEEEEEEEEccccccccEEEEEEccHHHHHHHHHHccccccccccEEEccccHHHHHHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mdlyddailgmgptdtntspgehvstehddidlyddvtlqpfpehtgrsparyrhhryshhhsqatssshcnlyvgnltwwtteadmsdairsigvpdfidvkffenasngqskgfcTVTLGSEESMSLVMERlptlelhgrkpmvayptrnVLYQFeaqnplrsrsrrsyr
Flexible Loop (DISEMBL)
mdlyddailgmgptdtntspgeHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSHHhsqatssshcnLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFenasngqskgFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVlyqfeaqnplrsrsrrsyr
Low Complexity Region (SEG)
MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPAryrhhryshhhsqatssshCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRSYR
Disordered region (IsUnstruct)
********************************LY***********************************HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQF***************
Disordered Region (DISOPRED)
MDLYDDAI****************************************************************LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV**************************
Disordered Region (DISEMBL)
MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPAR*****************HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQN***********
Disordered Region (DISPRO)
*****D*IL*****************************LQ**************************SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQ************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRSYR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	172	2.2.26 [Sep-21-2011]
Q9VSH4	652	Cleavage and polyadenylat	yes	N/A	0.860	0.226	0.417	5e-27
Q6NWC6	545	Cleavage and polyadenylat	yes	N/A	0.767	0.242	0.421	9e-25
Q16630	551	Cleavage and polyadenylat	yes	N/A	0.732	0.228	0.405	2e-24
Q0P5D2	551	Cleavage and polyadenylat	yes	N/A	0.732	0.228	0.405	2e-24
Q6NVF9	551	Cleavage and polyadenylat	yes	N/A	0.732	0.228	0.405	2e-24
Q5ZL34	551	Cleavage and polyadenylat	yes	N/A	0.755	0.235	0.389	3e-24
Q6DDW4	548	Cleavage and polyadenylat	N/A	N/A	0.767	0.240	0.408	1e-23
Q5NVH8	552	Cleavage and polyadenylat	yes	N/A	0.732	0.228	0.398	5e-23
Q8N684	471	Cleavage and polyadenylat	no	N/A	0.918	0.335	0.360	4e-20
Q5XI29	462	Cleavage and polyadenylat	no	N/A	0.889	0.331	0.382	9e-20

>sp|Q9VSH4|CPSF6_DROME Cleavage and polyadenylation specificity factor subunit CG7185 OS=Drosophila melanogaster GN=CG7185 PE=1 SV=2

 Score =  120 bits (301), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 68/163 (41%), Positives = 98/163 (60%), Gaps = 15/163 (9%)

Query: 1   MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSH 60
           +DLYDD  +G GPT++  S G    T   D       + +P   ++G     Y       
Sbjct: 30  VDLYDD--IG-GPTESAASGGGGGGTPSAD-GAAGPGSGEPGERNSGGPNGVY------- 78

Query: 61  HHSQATSSSHCN----LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGF 116
           H S  + +   N    LYVGNLTWWTT+ D+++++R IGV D  +VKFFEN +NGQSKGF
Sbjct: 79  HQSSGSLTPTMNRRYQLYVGNLTWWTTDQDIANSLRDIGVSDLQEVKFFENRANGQSKGF 138

Query: 117 CTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEA 159
             ++LGSE S+  V+++LP  E+HG+ P+V YP++  L QFE+
Sbjct: 139 SVISLGSESSLRAVLDQLPKKEMHGQAPVVTYPSKQALTQFES 181

May play a role in pre-mRNA 3' processing.
Drosophila melanogaster (taxid: 7227)

>sp|Q6NWC6|CPSF6_DANRE Cleavage and polyadenylation specificity factor subunit 6 OS=Danio rerio GN=cpsf6 PE=2 SV=1

 Score =  112 bits (281), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 62/147 (42%), Positives = 87/147 (59%), Gaps = 15/147 (10%)

Query: 28  HDDIDLYDDVTLQPFPEHTGRSPAR--YRHHRYSHHHSQATSSSHCN-----------LY 74
           HD IDLYDDV + P   + G +P    Y     +   ++ +  +  N           LY
Sbjct: 27  HDQIDLYDDV-ISPS-ANNGDAPEDRDYLDSLPAPGGNEGSKGAPANVVYTYNGKRIALY 84

Query: 75  VGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL 134
           +GNLTWWTT+ D++DAIRSIG+ D +++KFFEN +NGQSKGF  V +GS+ S   +M+ L
Sbjct: 85  IGNLTWWTTDEDLTDAIRSIGINDVLEIKFFENRANGQSKGFALVCVGSDSSSRKLMDLL 144

Query: 135 PTLELHGRKPMVAYPTRNVLYQFEAQN 161
              ELHG+ P+V    +  L QFE Q+
Sbjct: 145 SKRELHGQNPIVTPCNKQSLSQFEMQS 171

Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3'-processing.

Danio rerio (taxid: 7955)

>sp|Q16630|CPSF6_HUMAN Cleavage and polyadenylation specificity factor subunit 6 OS=Homo sapiens GN=CPSF6 PE=1 SV=2

 Score =  112 bits (279), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 62/153 (40%), Positives = 84/153 (54%), Gaps = 27/153 (17%)

Query: 28  HDDIDLYDDV------------------TLQP-FPEHTGRSPARYRHHRYSHHHSQATSS 68
           HD IDLYDDV                  TL P   +  G+  A    + Y+         
Sbjct: 27  HDQIDLYDDVISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYT--------G 78

Query: 69  SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMS 128
               LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S  
Sbjct: 79  KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSK 138

Query: 129 LVMERLPTLELHGRKPMVAYPTRNVLYQFEAQN 161
            +M+ LP  ELHG+ P+V    +  L QFE Q+
Sbjct: 139 KLMDLLPKRELHGQNPVVTPCNKQFLSQFEMQS 171

Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3'-processing. Involved in association with NUDT21/CPSF5 in pre-MRNA 3'-end poly(A) site cleavage and poly(A) addition. CPSF6 binds to cleavage and polyadenylation RNA substrates and promotes RNA looping.

Homo sapiens (taxid: 9606)

>sp|Q0P5D2|CPSF6_BOVIN Cleavage and polyadenylation specificity factor subunit 6 OS=Bos taurus GN=CPSF6 PE=2 SV=1

 Score =  112 bits (279), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 62/153 (40%), Positives = 84/153 (54%), Gaps = 27/153 (17%)

Query: 28  HDDIDLYDDV------------------TLQP-FPEHTGRSPARYRHHRYSHHHSQATSS 68
           HD IDLYDDV                  TL P   +  G+  A    + Y+         
Sbjct: 27  HDQIDLYDDVISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYT--------G 78

Query: 69  SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMS 128
               LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S  
Sbjct: 79  KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSK 138

Query: 129 LVMERLPTLELHGRKPMVAYPTRNVLYQFEAQN 161
            +M+ LP  ELHG+ P+V    +  L QFE Q+
Sbjct: 139 KLMDLLPKRELHGQNPVVTPCNKQFLSQFEMQS 171

Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3'-processing. Involved in association with NUDT21/CPSF5 in pre-MRNA 3'-end poly(A) site cleavage and poly(A) addition. CPSF6 binds to cleavage and polyadenylation RNA substrates and promotes RNA looping.

Bos taurus (taxid: 9913)

>sp|Q6NVF9|CPSF6_MOUSE Cleavage and polyadenylation specificity factor subunit 6 OS=Mus musculus GN=Cpsf6 PE=1 SV=1

 Score =  112 bits (279), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 62/153 (40%), Positives = 84/153 (54%), Gaps = 27/153 (17%)

Query: 28  HDDIDLYDDV------------------TLQP-FPEHTGRSPARYRHHRYSHHHSQATSS 68
           HD IDLYDDV                  TL P   +  G+  A    + Y+         
Sbjct: 27  HDQIDLYDDVISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYT--------G 78

Query: 69  SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMS 128
               LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S  
Sbjct: 79  KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSK 138

Query: 129 LVMERLPTLELHGRKPMVAYPTRNVLYQFEAQN 161
            +M+ LP  ELHG+ P+V    +  L QFE Q+
Sbjct: 139 KLMDLLPKRELHGQSPVVTPCNKQFLSQFEMQS 171

Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3'-processing. Involved in association with NUDT21/CPSF5 in pre-MRNA 3'-end poly(A) site cleavage and poly(A) addition. CPSF6 binds to cleavage and polyadenylation RNA substrates and promotes RNA looping.

Mus musculus (taxid: 10090)

>sp|Q5ZL34|CPSF6_CHICK Cleavage and polyadenylation specificity factor subunit 6 OS=Gallus gallus GN=CPSF6 PE=2 SV=1

 Score =  111 bits (277), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 58/149 (38%), Positives = 81/149 (54%), Gaps = 19/149 (12%)

Query: 28  HDDIDLYDDVT---------------LQPFPEHTGRSPARYRHHRYSHHHSQATSSSHCN 72
           HD IDLYDDV                +   P   G    +       + ++         
Sbjct: 27  HDQIDLYDDVISPSANNGDAPEDRDYMDSLPPSVGDDVGKGAAPNVVYTYT----GKRIA 82

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S   +M+
Sbjct: 83  LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 142

Query: 133 RLPTLELHGRKPMVAYPTRNVLYQFEAQN 161
            LP  ELHG+ P+V    +  L QFE Q+
Sbjct: 143 LLPKRELHGQNPVVTPCNKQFLSQFEMQS 171

Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3'-processing.

Gallus gallus (taxid: 9031)

>sp|Q6DDW4|CPSF6_XENLA Cleavage and polyadenylation specificity factor subunit 6 OS=Xenopus laevis GN=cpsf6 PE=2 SV=1

 Score =  109 bits (272), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 60/147 (40%), Positives = 85/147 (57%), Gaps = 15/147 (10%)

Query: 28  HDDIDLYDDVTLQPFPEHTGRSPA--RYRHHRYSHHHSQATSSSHCN-----------LY 74
           HD I+LY+DV L P   + G +P    Y  +  +         S  N           LY
Sbjct: 27  HDQIELYEDV-LSPS-ANNGDAPEDRDYMDNLAASVGDDVVKGSVPNIVYTYTGKRIALY 84

Query: 75  VGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL 134
           +GNLTWWTT+ D++DA+ S+GV D +++KFFEN +NGQSKGF  + + SE S   +M+ L
Sbjct: 85  IGNLTWWTTDEDLTDAVHSLGVNDILEIKFFENRANGQSKGFALICVSSESSSKKLMDLL 144

Query: 135 PTLELHGRKPMVAYPTRNVLYQFEAQN 161
           P  E+HG+KP+V    +  L QFE Q+
Sbjct: 145 PKREMHGQKPIVTPCNKQFLSQFEMQS 171

Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3'-processing.

Xenopus laevis (taxid: 8355)

>sp|Q5NVH8|CPSF6_PONAB Cleavage and polyadenylation specificity factor subunit 6 OS=Pongo abelii GN=CPSF6 PE=2 SV=1

 Score =  107 bits (266), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 61/153 (39%), Positives = 83/153 (54%), Gaps = 27/153 (17%)

Query: 28  HDDIDLYDDV------------------TLQP-FPEHTGRSPARYRHHRYSHHHSQATSS 68
           HD IDLYDDV                  TL P   +  G+  A    + Y+         
Sbjct: 27  HDQIDLYDDVISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYT--------G 78

Query: 69  SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMS 128
               LY+GNLT WTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S  
Sbjct: 79  KRIALYIGNLTRWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSK 138

Query: 129 LVMERLPTLELHGRKPMVAYPTRNVLYQFEAQN 161
            +M+ LP  ELHG+ P+V    +  L QFE Q+
Sbjct: 139 KLMDLLPKRELHGQNPVVTPCNKQFLSQFEMQS 171

Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3'-processing. Involved in association with NUDT21/CPSF5 in pre-MRNA 3'-end poly(A) site cleavage and poly(A) addition. CPSF6 binds to cleavage and polyadenylation RNA substrates and promotes RNA looping.

Pongo abelii (taxid: 9601)

>sp|Q8N684|CPSF7_HUMAN Cleavage and polyadenylation specificity factor subunit 7 OS=Homo sapiens GN=CPSF7 PE=1 SV=1

 Score = 97.4 bits (241), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 67/186 (36%), Positives = 92/186 (49%), Gaps = 28/186 (15%)

Query: 1   MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDV---TLQPFPEHTGRS----PARY 53
           +D+Y D      P   NT          D IDLYDDV   T QP  + +  +    P R 
Sbjct: 8   IDIYADEEFNQDPEFNNT----------DQIDLYDDVLTATSQPSDDRSSSTEPPPPVRQ 57

Query: 54  RHHRYSHHHSQATSSSHCNL-------YVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFE 106
                 ++ + A   ++  L       YVG+ +WWTT+  +   IRSIGV D +++KF E
Sbjct: 58  EPSPKPNNKTPAILYTYSGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAE 117

Query: 107 NASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSR 166
           N +NGQSKG+  V + SE S+  ++E LP   L+G K  V   TR  L QFEAQ    +R
Sbjct: 118 NRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPATRQNLSQFEAQ----AR 173

Query: 167 SRRSYR 172
            R   R
Sbjct: 174 KRECVR 179

Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3' processing. Binds to cleavage and polyadenylation RNA substrates.

Homo sapiens (taxid: 9606)

>sp|Q5XI29|CPSF7_RAT Cleavage and polyadenylation specificity factor subunit 7 OS=Rattus norvegicus GN=Cpsf7 PE=2 SV=1

 Score = 96.3 bits (238), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 67/175 (38%), Positives = 93/175 (53%), Gaps = 22/175 (12%)

Query: 1   MDLYDDAILGMG-PTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYS 59
           +DLYDD +     P+D  +S     STE         V  +P P+   ++PA    + YS
Sbjct: 28  IDLYDDVLTAASQPSDDRSS-----STEPPP-----PVRQEPAPKPNNKTPAIL--YTYS 75

Query: 60  HHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTV 119
              S+        +YVG+ +WWTT+  +   IRSIGV D +++KF EN +NGQSKG+  V
Sbjct: 76  GLRSR-----RAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEV 130

Query: 120 TLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQN----PLRSRSRRS 170
            + SE S+  ++E LP   L+G K  V   TR  L QFEAQ     P R+ SR S
Sbjct: 131 VVASENSVHKLLELLPGKVLNGEKVDVRPATRQNLSQFEAQARKRIPPRAHSRDS 185

Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3' processing. Binds to cleavage and polyadenylation RNA substrates.

Rattus norvegicus (taxid: 10116)

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	172
340715105	801	PREDICTED: hypothetical protein LOC10065	0.924	0.198	0.426	2e-32
350397432	801	PREDICTED: hypothetical protein LOC10074	0.924	0.198	0.426	2e-32
328782249	801	PREDICTED: hypothetical protein LOC55197	0.924	0.198	0.426	2e-32
345490306	713	PREDICTED: hypothetical protein LOC10012	0.860	0.207	0.456	5e-32
158292471	644	AGAP005062-PA [Anopheles gambiae str. PE	0.790	0.211	0.513	5e-32
345490304	748	PREDICTED: hypothetical protein LOC10012	0.860	0.197	0.456	5e-32
383855542	800	PREDICTED: uncharacterized protein LOC10	0.924	0.198	0.426	6e-32
403182456	615	AAEL017164-PA [Aedes aegypti]	0.767	0.214	0.517	7e-32
242022595	535	Cleavage and polyadenylation specificity	0.912	0.293	0.426	2e-31
170037453	633	conserved hypothetical protein [Culex qu	0.767	0.208	0.503	3e-31

>gi|340715105|ref|XP_003396060.1| PREDICTED: hypothetical protein LOC100651995 [Bombus terrestris]

 Score =  143 bits (361), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 76/178 (42%), Positives = 105/178 (58%), Gaps = 19/178 (10%)

Query: 1   MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSH 60
           +DLYDD I      +   S G       D        T  P  E  G +P    +H+  +
Sbjct: 27  VDLYDDVIAAPAGGNGGVSTGNSGDGAGD--------TTSPNEETNGSAP----YHQLGN 74

Query: 61  HHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVT 120
           +           LYVGNLTWWT++ D++DA++SIGV DF++VKFFEN +NGQSKGFC ++
Sbjct: 75  NIQPNQIGRRHQLYVGNLTWWTSDQDITDAVQSIGVSDFVEVKFFENRANGQSKGFCVIS 134

Query: 121 LGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQ-------NPLRSRSRRSY 171
           LGSE+SM + MERLP  ELHG+ P+V +PT+  L QFE+Q        P +S+S+R +
Sbjct: 135 LGSEQSMRICMERLPKKELHGQNPVVTFPTKQALNQFESQCKTRPAPAPQQSQSQRPH 192

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350397432|ref|XP_003484878.1| PREDICTED: hypothetical protein LOC100749581 [Bombus impatiens]

 Score =  143 bits (361), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 76/178 (42%), Positives = 105/178 (58%), Gaps = 19/178 (10%)

Query: 1   MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSH 60
           +DLYDD I      +   S G       D        T  P  E  G +P    +H+  +
Sbjct: 27  VDLYDDVIAAPAGGNGGVSTGNSGDGAGD--------TTSPNEETNGSAP----YHQLGN 74

Query: 61  HHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVT 120
           +           LYVGNLTWWT++ D++DA++SIGV DF++VKFFEN +NGQSKGFC ++
Sbjct: 75  NIQPNQIGRRHQLYVGNLTWWTSDQDITDAVQSIGVSDFVEVKFFENRANGQSKGFCVIS 134

Query: 121 LGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQ-------NPLRSRSRRSY 171
           LGSE+SM + MERLP  ELHG+ P+V +PT+  L QFE+Q        P +S+S+R +
Sbjct: 135 LGSEQSMRICMERLPKKELHGQNPVVTFPTKQALNQFESQCKTRPAPAPQQSQSQRPH 192

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328782249|ref|XP_624359.3| PREDICTED: hypothetical protein LOC551973 [Apis mellifera]

 Score =  143 bits (361), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 76/178 (42%), Positives = 105/178 (58%), Gaps = 19/178 (10%)

Query: 1   MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSH 60
           +DLYDD I      +   S G       D        T  P  E  G +P    +H+  +
Sbjct: 27  VDLYDDVIAAPAGGNGGVSTGNSGDGGGD--------TTSPNEETNGSAP----YHQLGN 74

Query: 61  HHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVT 120
           +           LYVGNLTWWT++ D++DA++SIGV DF++VKFFEN +NGQSKGFC ++
Sbjct: 75  NIQPNQIGRRHQLYVGNLTWWTSDQDITDAVQSIGVSDFVEVKFFENRANGQSKGFCVIS 134

Query: 121 LGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQ-------NPLRSRSRRSY 171
           LGSE+SM + MERLP  ELHG+ P+V +PT+  L QFE+Q        P +S+S+R +
Sbjct: 135 LGSEQSMRICMERLPKKELHGQNPVVTFPTKQALNQFESQCKTRPAPAPQQSQSQRPH 192

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345490306|ref|XP_003426348.1| PREDICTED: hypothetical protein LOC100121979 isoform 2 [Nasonia vitripennis]

 Score =  142 bits (358), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 73/160 (45%), Positives = 97/160 (60%), Gaps = 12/160 (7%)

Query: 1   MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSH 60
           +DLYDD I        N   G   S+E  D D           E  G +P    +H+  +
Sbjct: 29  VDLYDDVIAA---APGNNERGTSESSERGDRDRETSNE-----ETNGNAP----YHQLGN 76

Query: 61  HHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVT 120
           +           LYVGNLTWWT++ D++DA+ +IGVPDFI+VKFFEN +NG+SKGFC ++
Sbjct: 77  NIQPNQIGRRHQLYVGNLTWWTSDQDIADAVANIGVPDFIEVKFFENRANGRSKGFCVIS 136

Query: 121 LGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQ 160
           LGSE+SM + MERLP  ELHG+ P V YP++  L QFE+Q
Sbjct: 137 LGSEQSMRMCMERLPKKELHGQHPQVTYPSKQALNQFESQ 176

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158292471|ref|XP_313937.4| AGAP005062-PA [Anopheles gambiae str. PEST] gi|157017007|gb|EAA09472.4| AGAP005062-PA [Anopheles gambiae str. PEST]

 Score =  142 bits (358), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 75/146 (51%), Positives = 92/146 (63%), Gaps = 10/146 (6%)

Query: 29  DDIDLYDDVTLQPFP-EHTGRSPARYRHHRYS-----HHHSQATSSSHC----NLYVGNL 78
           D  DLYDDV +      + GR P+  R          HHH  A S SH      LYVGNL
Sbjct: 28  DSGDLYDDVIVPSGDRNNAGRGPSMDRGDGVDTNGSYHHHPGAWSLSHIPRRHQLYVGNL 87

Query: 79  TWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLE 138
            WWTT+ D++D++  +GV DF +VKFFEN +NGQSKGFC ++LGSE SM LVMERLP  E
Sbjct: 88  PWWTTDQDITDSVADVGVNDFQEVKFFENRANGQSKGFCVISLGSENSMRLVMERLPKKE 147

Query: 139 LHGRKPMVAYPTRNVLYQFEAQNPLR 164
           LHG+ P+V  PT+  L QFE+Q   R
Sbjct: 148 LHGQNPVVTLPTKQALNQFESQQKTR 173

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345490304|ref|XP_001605581.2| PREDICTED: hypothetical protein LOC100121979 isoform 1 [Nasonia vitripennis]

 Score =  142 bits (357), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 73/160 (45%), Positives = 97/160 (60%), Gaps = 12/160 (7%)

Query: 1   MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSH 60
           +DLYDD I        N   G   S+E  D D           E  G +P    +H+  +
Sbjct: 29  VDLYDDVIAA---APGNNERGTSESSERGDRDRETSNE-----ETNGNAP----YHQLGN 76

Query: 61  HHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVT 120
           +           LYVGNLTWWT++ D++DA+ +IGVPDFI+VKFFEN +NG+SKGFC ++
Sbjct: 77  NIQPNQIGRRHQLYVGNLTWWTSDQDIADAVANIGVPDFIEVKFFENRANGRSKGFCVIS 136

Query: 121 LGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQ 160
           LGSE+SM + MERLP  ELHG+ P V YP++  L QFE+Q
Sbjct: 137 LGSEQSMRMCMERLPKKELHGQHPQVTYPSKQALNQFESQ 176

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383855542|ref|XP_003703269.1| PREDICTED: uncharacterized protein LOC100878557 [Megachile rotundata]

 Score =  142 bits (357), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 76/178 (42%), Positives = 104/178 (58%), Gaps = 19/178 (10%)

Query: 1   MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSH 60
           +DLYDD I      +   S G       D        T  P  E  G +P    +H+  +
Sbjct: 27  VDLYDDVIAAPAGGNGGVSTGNSGDGGGD--------TTSPNEETNGSAP----YHQLGN 74

Query: 61  HHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVT 120
           +           LYVGNLTWWT++ D++DA++SIGV DF++VKFFEN +NGQSKGFC ++
Sbjct: 75  NIQPNQIGRRHQLYVGNLTWWTSDQDITDAVQSIGVSDFVEVKFFENRANGQSKGFCVIS 134

Query: 121 LGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQ-------NPLRSRSRRSY 171
           LGSE+SM   MERLP  ELHG+ P+V +PT+  L QFE+Q        P +S+S+R +
Sbjct: 135 LGSEQSMRTCMERLPKKELHGQNPVVTFPTKQALNQFESQCKTRPAPAPQQSQSQRPH 192

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|403182456|gb|EJY57399.1| AAEL017164-PA [Aedes aegypti]

 Score =  141 bits (356), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 75/145 (51%), Positives = 94/145 (64%), Gaps = 13/145 (8%)

Query: 32  DLYDDVTLQPFPEH----TGRSPARYR------HHRYSHHHSQATS--SSHCNLYVGNLT 79
           DLYDDV + P  +H    +GR P+  R      +  Y HH S   +  +    LYVGNL+
Sbjct: 31  DLYDDV-ITPSGDHGRNSSGRGPSMERLDGVDTNGAYHHHGSGPMNHMARRFQLYVGNLS 89

Query: 80  WWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL 139
           WWTT+ D++DAI  +GV DF +VKFFEN +NGQSKGFC V+LGSE SM  VMERLP  EL
Sbjct: 90  WWTTDQDIADAIAEVGVNDFQEVKFFENRANGQSKGFCVVSLGSENSMRYVMERLPKKEL 149

Query: 140 HGRKPMVAYPTRNVLYQFEAQNPLR 164
           HG+ P+V  PT+  L QFE+Q   R
Sbjct: 150 HGQNPVVTLPTKQALNQFESQQKTR 174

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242022595|ref|XP_002431725.1| Cleavage and polyadenylation specificity factor, putative [Pediculus humanus corporis] gi|212517040|gb|EEB18987.1| Cleavage and polyadenylation specificity factor, putative [Pediculus humanus corporis]

 Score =  140 bits (352), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 75/176 (42%), Positives = 102/176 (57%), Gaps = 19/176 (10%)

Query: 1   MDLYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRH----- 55
           +D+Y D I      +  T+ GE     +D +DLYDDV   P       +P R        
Sbjct: 7   IDIYGDDI------EPETATGEM--DIYDGVDLYDDVIAAPQGSEENVNPNRIPQGAPPV 58

Query: 56  ------HRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENAS 109
                 +  +             LYVGNLTWWTT+ D++DA+ SIGV DF++VKFFEN +
Sbjct: 59  TPGPSPNGLAFPPKNPQILQRFQLYVGNLTWWTTDQDITDAVLSIGVTDFMEVKFFENRA 118

Query: 110 NGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRS 165
           NGQSKGFC ++LGSE SM + +ERLP  ELHG+ P+V +P++  L QFE+Q+  RS
Sbjct: 119 NGQSKGFCVISLGSEPSMRICLERLPKKELHGQLPVVTFPSKQALSQFESQSKTRS 174

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170037453|ref|XP_001846572.1| conserved hypothetical protein [Culex quinquefasciatus] gi|167880680|gb|EDS44063.1| conserved hypothetical protein [Culex quinquefasciatus]

 Score =  140 bits (352), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 73/145 (50%), Positives = 93/145 (64%), Gaps = 13/145 (8%)

Query: 32  DLYDDVTLQPFPEH----TGRSPARYR----HHRYSHHHSQATSSSHC----NLYVGNLT 79
           DLYDDV + P  +H    +GR P+  R         +HH  + S +H      LY+GNL+
Sbjct: 31  DLYDDV-ITPSGDHGRNNSGRGPSMDRLDGSDRNGDYHHHGSGSMNHIARRHQLYIGNLS 89

Query: 80  WWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL 139
           WWTT+ D++D I  +GV DF +VKFFEN +NGQSKGFC V+LGSE SM  VMERLP  EL
Sbjct: 90  WWTTDQDIADVIGDVGVNDFQEVKFFENRANGQSKGFCVVSLGSENSMRYVMERLPKKEL 149

Query: 140 HGRKPMVAYPTRNVLYQFEAQNPLR 164
           HG+ P+V  PT+  L QFE+Q   R
Sbjct: 150 HGQNPVVTLPTKQALNQFESQQKTR 174

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	172
FB|FBgn0035872	652	CG7185 [Drosophila melanogaste	0.534	0.141	0.543	3.9e-26
UNIPROTKB|J9NXJ8	450	CPSF6 "Uncharacterized protein	0.773	0.295	0.410	3.1e-24
ZFIN|ZDB-GENE-030131-5277	545	cpsf6 "cleavage and polyadenyl	0.808	0.255	0.414	6e-24
UNIPROTKB|J9P3M5	522	CPSF6 "Uncharacterized protein	0.808	0.266	0.401	7.7e-24
UNIPROTKB|J9NRP4	549	CPSF6 "Uncharacterized protein	0.808	0.253	0.401	1e-23
UNIPROTKB|F1PGL4	569	CPSF6 "Uncharacterized protein	0.808	0.244	0.401	1.3e-23
UNIPROTKB|F8WJN3	478	CPSF6 "Cleavage and polyadenyl	0.912	0.328	0.377	7.8e-23
UNIPROTKB|F1NGU9	549	CPSF6 "Cleavage and polyadenyl	0.912	0.285	0.377	1.3e-22
UNIPROTKB|Q5ZL34	551	CPSF6 "Cleavage and polyadenyl	0.912	0.284	0.377	1.3e-22
UNIPROTKB|F2Z4E9	551	CPSF6 "Cleavage and polyadenyl	0.912	0.284	0.377	1.3e-22

FB|FBgn0035872 CG7185 [Drosophila melanogaster (taxid:7227)]

 Score = 287 (106.1 bits), Expect = 3.9e-26, Sum P(2) = 3.9e-26
 Identities = 50/92 (54%), Positives = 70/92 (76%)

Query:    73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
             LYVGNLTWWTT+ D+++++R IGV D  +VKFFEN +NGQSKGF  ++LGSE S+  V++
Sbjct:    95 LYVGNLTWWTTDQDIANSLRDIGVSDLQEVKFFENRANGQSKGFSVISLGSESSLRAVLD 154

Query:   133 RLPTLELHGRKPMVAYPTRNVLYQFEAQNPLR 164
             +LP  E+HG+ P+V YP++  L QFE+    R
Sbjct:   155 QLPKKEMHGQAPVVTYPSKQALTQFESLQKTR 186

GO:0003729 "mRNA binding" evidence=ISS

GO:0006379 "mRNA cleavage" evidence=ISS

GO:0005849 "mRNA cleavage factor complex" evidence=ISS

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IC

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

UNIPROTKB|J9NXJ8 CPSF6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 266 (98.7 bits), Expect = 3.1e-24, Sum P(2) = 3.1e-24
 Identities = 60/146 (41%), Positives = 80/146 (54%)

Query:    28 HDDIDLYDDVTLQPF------PE---HTGRSPAXXXXXXXXXXX---XXXXXXXXCNLYV 75
             HD IDLYDDV + P       PE   +    P                         LY+
Sbjct:     7 HDQIDLYDDV-ISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIALYI 65

Query:    76 GNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP 135
             GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S   +M+ LP
Sbjct:    66 GNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLP 125

Query:   136 TLELHGRKPMVAYPTRNVLYQFEAQN 161
               ELHG+ P+V    +  L QFE Q+
Sbjct:   126 KRELHGQNPVVTPCNKQFLSQFEMQS 151

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-030131-5277 cpsf6 "cleavage and polyadenylation specific factor 6" [Danio rerio (taxid:7955)]

 Score = 269 (99.8 bits), Expect = 6.0e-24, Sum P(2) = 6.0e-24
 Identities = 63/152 (41%), Positives = 84/152 (55%)

Query:    28 HDDIDLYDDVTLQPF------PE---HTGRSPA---XXXXXXXXXXXXXXXXXXXCNLYV 75
             HD IDLYDDV + P       PE   +    PA                        LY+
Sbjct:    27 HDQIDLYDDV-ISPSANNGDAPEDRDYLDSLPAPGGNEGSKGAPANVVYTYNGKRIALYI 85

Query:    76 GNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP 135
             GNLTWWTT+ D++DAIRSIG+ D +++KFFEN +NGQSKGF  V +GS+ S   +M+ L 
Sbjct:    86 GNLTWWTTDEDLTDAIRSIGINDVLEIKFFENRANGQSKGFALVCVGSDSSSRKLMDLLS 145

Query:   136 TLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
               ELHG+ P+V    +  L QFE Q+   ++S
Sbjct:   146 KRELHGQNPIVTPCNKQSLSQFEMQSRKSTQS 177

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003729 "mRNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0005849 "mRNA cleavage factor complex" evidence=ISS

GO:0006378 "mRNA polyadenylation" evidence=ISS

GO:0006397 "mRNA processing" evidence=IEA

UNIPROTKB|J9P3M5 CPSF6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 267 (99.0 bits), Expect = 7.7e-24, Sum P(2) = 7.7e-24
 Identities = 61/152 (40%), Positives = 83/152 (54%)

Query:    28 HDDIDLYDDVTLQPF------PE---HTGRSPAXXXXXXXXXXX---XXXXXXXXCNLYV 75
             HD IDLYDDV + P       PE   +    P                         LY+
Sbjct:     8 HDQIDLYDDV-ISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIALYI 66

Query:    76 GNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP 135
             GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S   +M+ LP
Sbjct:    67 GNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLP 126

Query:   136 TLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
               ELHG+ P+V    +  L QFE Q+   ++S
Sbjct:   127 KRELHGQNPVVTPCNKQFLSQFEMQSRKTTQS 158

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|J9NRP4 CPSF6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 267 (99.0 bits), Expect = 1.0e-23, Sum P(2) = 1.0e-23
 Identities = 61/152 (40%), Positives = 83/152 (54%)

Query:    28 HDDIDLYDDVTLQPF------PE---HTGRSPAXXXXXXXXXXX---XXXXXXXXCNLYV 75
             HD IDLYDDV + P       PE   +    P                         LY+
Sbjct:    25 HDQIDLYDDV-ISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIALYI 83

Query:    76 GNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP 135
             GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S   +M+ LP
Sbjct:    84 GNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLP 143

Query:   136 TLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
               ELHG+ P+V    +  L QFE Q+   ++S
Sbjct:   144 KRELHGQNPVVTPCNKQFLSQFEMQSRKTTQS 175

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1PGL4 CPSF6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 267 (99.0 bits), Expect = 1.3e-23, Sum P(2) = 1.3e-23
 Identities = 61/152 (40%), Positives = 83/152 (54%)

Query:    28 HDDIDLYDDVTLQPF------PE---HTGRSPAXXXXXXXXXXX---XXXXXXXXCNLYV 75
             HD IDLYDDV + P       PE   +    P                         LY+
Sbjct:     8 HDQIDLYDDV-ISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIALYI 66

Query:    76 GNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP 135
             GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S   +M+ LP
Sbjct:    67 GNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLP 126

Query:   136 TLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
               ELHG+ P+V    +  L QFE Q+   ++S
Sbjct:   127 KRELHGQNPVVTPCNKQFLSQFEMQSRKTTQS 158

GO:0051262 "protein tetramerization" evidence=IEA

GO:0042382 "paraspeckles" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006378 "mRNA polyadenylation" evidence=IEA

GO:0005849 "mRNA cleavage factor complex" evidence=IEA

GO:0003729 "mRNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F8WJN3 CPSF6 "Cleavage and polyadenylation-specificity factor subunit 6" [Homo sapiens (taxid:9606)]

 Score = 269 (99.8 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 66/175 (37%), Positives = 90/175 (51%)

Query:    10 GMGPTDTNTSPGEHVSTE-----HDDIDLYDDVTLQPF------PE---HTGRSPAXXXX 55
             G+   D     GE  + E     HD IDLYDDV + P       PE   +    P     
Sbjct:     4 GVDHIDIYADVGEEFNQEAEYGGHDQIDLYDDV-ISPSANNGDAPEDRDYMDTLPPTVGD 62

Query:    56 XXXXXXX---XXXXXXXXCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQ 112
                                 LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQ
Sbjct:    63 DVGKGAAPNVVYTYTGKRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQ 122

Query:   113 SKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
             SKGF  V +GSE S   +M+ LP  ELHG+ P+V    +  L QFE Q+   ++S
Sbjct:   123 SKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPCNKQFLSQFEMQSRKTTQS 177

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

UNIPROTKB|F1NGU9 CPSF6 "Cleavage and polyadenylation-specificity factor subunit 6" [Gallus gallus (taxid:9031)]

 Score = 269 (99.8 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 66/175 (37%), Positives = 90/175 (51%)

Query:    10 GMGPTDTNTSPGEHVSTE-----HDDIDLYDDVTLQPF------PE---HTGRSPAXXXX 55
             G+   D     GE  + E     HD IDLYDDV + P       PE   +    P     
Sbjct:     4 GVDHIDIYADVGEEFNQEAEYGGHDQIDLYDDV-ISPSANNGDAPEDRDYMDSLPPSVGD 62

Query:    56 XXXXXXX---XXXXXXXXCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQ 112
                                 LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQ
Sbjct:    63 DVGKGAAPNVVYTYTGKRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQ 122

Query:   113 SKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
             SKGF  V +GSE S   +M+ LP  ELHG+ P+V    +  L QFE Q+   ++S
Sbjct:   123 SKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPCNKQFLSQFEMQSRKTTQS 177

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003729 "mRNA binding" evidence=IEA

GO:0005849 "mRNA cleavage factor complex" evidence=IEA

GO:0006378 "mRNA polyadenylation" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0042382 "paraspeckles" evidence=IEA

GO:0051262 "protein tetramerization" evidence=IEA

UNIPROTKB|Q5ZL34 CPSF6 "Cleavage and polyadenylation specificity factor subunit 6" [Gallus gallus (taxid:9031)]

 Score = 269 (99.8 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 66/175 (37%), Positives = 90/175 (51%)

Query:    10 GMGPTDTNTSPGEHVSTE-----HDDIDLYDDVTLQPF------PE---HTGRSPAXXXX 55
             G+   D     GE  + E     HD IDLYDDV + P       PE   +    P     
Sbjct:     4 GVDHIDIYADVGEEFNQEAEYGGHDQIDLYDDV-ISPSANNGDAPEDRDYMDSLPPSVGD 62

Query:    56 XXXXXXX---XXXXXXXXCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQ 112
                                 LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQ
Sbjct:    63 DVGKGAAPNVVYTYTGKRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQ 122

Query:   113 SKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
             SKGF  V +GSE S   +M+ LP  ELHG+ P+V    +  L QFE Q+   ++S
Sbjct:   123 SKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPCNKQFLSQFEMQSRKTTQS 177

GO:0000166 "nucleotide binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0042382 "paraspeckles" evidence=IEA

GO:0051262 "protein tetramerization" evidence=IEA

GO:0006378 "mRNA polyadenylation" evidence=ISS

GO:0003729 "mRNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0005849 "mRNA cleavage factor complex" evidence=ISS

UNIPROTKB|F2Z4E9 CPSF6 "Cleavage and polyadenylation-specificity factor subunit 6" [Bos taurus (taxid:9913)]

 Score = 269 (99.8 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 66/175 (37%), Positives = 90/175 (51%)

Query:    10 GMGPTDTNTSPGEHVSTE-----HDDIDLYDDVTLQPF------PE---HTGRSPAXXXX 55
             G+   D     GE  + E     HD IDLYDDV + P       PE   +    P     
Sbjct:     4 GVDHIDIYADVGEEFNQEAEYGGHDQIDLYDDV-ISPSANNGDAPEDRDYMDTLPPTVGD 62

Query:    56 XXXXXXX---XXXXXXXXCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQ 112
                                 LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQ
Sbjct:    63 DVGKGAAPNVVYTYTGKRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQ 122

Query:   113 SKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
             SKGF  V +GSE S   +M+ LP  ELHG+ P+V    +  L QFE Q+   ++S
Sbjct:   123 SKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPCNKQFLSQFEMQSRKTTQS 177

GO:0051262 "protein tetramerization" evidence=IEA

GO:0042382 "paraspeckles" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006378 "mRNA polyadenylation" evidence=IEA

GO:0005849 "mRNA cleavage factor complex" evidence=IEA

GO:0003729 "mRNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	172
cd12643	77	cd12643, RRM_CFIm68, RNA recognition motif of pre-	7e-42
cd12372	76	cd12372, RRM_CFIm68_CFIm59, RNA recognition motif	2e-31
cd12644	90	cd12644, RRM_CFIm59, RNA recognition motif of pre-	1e-28
smart00360	73	smart00360, RRM, RNA recognition motif	8e-14
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	2e-09
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	5e-09
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	8e-09
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	5e-08
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	1e-07
cd12447	76	cd12447, RRM1_gar2, RNA recognition motif 1 in yea	1e-06
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	4e-06
PLN03134	144	PLN03134, PLN03134, glycine-rich RNA-binding prote	4e-06
cd12321	77	cd12321, RRM1_TDP43, RNA recognition motif 1 in TA	4e-05
cd12387	72	cd12387, RRM3_hnRNPM_like, RNA recognition motif 3	3e-04
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	4e-04
cd12272	72	cd12272, RRM2_PHIP1, RNA recognition motif 2 in Ar	5e-04
cd12756	74	cd12756, RRM1_hnRNPD, RNA recognition motif 1 in h	6e-04
cd12622	74	cd12622, RRM3_PUB1, RNA recognition motif 3 in yea	0.001
cd12417	74	cd12417, RRM_SAFB_like, RNA recognition motif in t	0.003
cd12575	74	cd12575, RRM1_hnRNPD_like, RNA recognition motif 1	0.003
cd12313	84	cd12313, RRM1_RRM2_RBM5_like, RNA recognition moti	0.003
cd12758	76	cd12758, RRM1_hnRPDL, RNA recognition motif 1 in h	0.004
cd12641	89	cd12641, RRM_TRA2B, RNA recognition motif in Trans	0.004

>gnl|CDD|241087 cd12643, RRM_CFIm68, RNA recognition motif of pre-mRNA cleavage factor Im 68 kDa subunit (CFIm68 or CPSF6) and similar proteins

 Score =  134 bits (339), Expect = 7e-42
 Identities = 45/76 (59%), Positives = 60/76 (78%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LYVGNLTWWTT+ D+++AI+SIGV D +++KFFEN +NGQSKGF  + LGSE S   +M+
Sbjct: 2   LYVGNLTWWTTDQDLTEAIQSIGVNDLLEIKFFENRANGQSKGFALIVLGSESSSRKLMD 61

Query: 133 RLPTLELHGRKPMVAY 148
           +LP  ELHG+ P+V  
Sbjct: 62  KLPKKELHGQNPVVTP 77

This subgroup corresponds to the RRM of CFIm68. Cleavage factor Im (CFIm) is a highly conserved component of the eukaryotic mRNA 3' processing machinery that functions in UGUA-mediated poly(A) site recognition, the regulation of alternative poly(A) site selection, mRNA export, and mRNA splicing. It is a complex composed of a small 25 kDa (CFIm25) subunit and a larger 59/68/72 kDa subunit. Two separate genes, CPSF6 and CPSF7, code for two isoforms of the large subunit, CFIm68 and CFIm59. The family includes CFIm68, also termed cleavage and polyadenylation specificity factor subunit 6 (CPSF6), or cleavage and polyadenylation specificity factor 68 kDa subunit (CPSF68), or protein HPBRII-4/7. CFIm68 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a central proline-rich region, and a C-terminal RS-like domain. The N-terminal RRM of CFIm68 mediates the interaction with CFIm25. It also serves to enhance RNA binding and facilitate RNA looping. . Length = 77

>gnl|CDD|240818 cd12372, RRM_CFIm68_CFIm59, RNA recognition motif of pre-mRNA cleavage factor Im 68 kDa subunit (CFIm68 or CPSF6), pre-mRNA cleavage factor Im 59 kDa subunit (CFIm59 or CPSF7), and similar proteins

 Score =  108 bits (271), Expect = 2e-31
 Identities = 37/76 (48%), Positives = 50/76 (65%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LYVGNLTWWTT+ D+  A+   GV D   +KFFE+ +NG+SKGF  V   SE + + V E
Sbjct: 1   LYVGNLTWWTTDEDLEGALAEAGVVDVKSIKFFEHKANGKSKGFAYVEFASEAAAAAVKE 60

Query: 133 RLPTLELHGRKPMVAY 148
           +L   E +G+K +V Y
Sbjct: 61  KLEGREFNGKKCVVTY 76

This subfamily corresponds to the RRM of cleavage factor Im (CFIm) subunits. Cleavage factor Im (CFIm) is a highly conserved component of the eukaryotic mRNA 3' processing machinery that functions in UGUA-mediated poly(A) site recognition, the regulation of alternative poly(A) site selection, mRNA export, and mRNA splicing. It is a complex composed of a small 25 kDa (CFIm25) subunit and a larger 59/68/72 kDa subunit. Two separate genes, CPSF6 and CPSF7, code for two isoforms of the large subunit, CFIm68 and CFIm59. Structurally related CFIm68 and CFIm59, also termed cleavage and polyadenylation specificity factor subunit 6 (CPSF7), or cleavage and polyadenylation specificity factor 59 kDa subunit (CPSF59), are functionally redundant. Both contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a central proline-rich region, and a C-terminal RS-like domain. Their N-terminal RRM mediates the interaction with CFIm25, and also serves to enhance RNA binding and facilitate RNA looping. . Length = 76

>gnl|CDD|241088 cd12644, RRM_CFIm59, RNA recognition motif of pre-mRNA cleavage factor Im 59 kDa subunit (CFIm59 or CPSF7) and similar proteins

 Score =  101 bits (253), Expect = 1e-28
 Identities = 42/87 (48%), Positives = 57/87 (65%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           +YVGN +WWTT+  +   IRS+GV D +++KF EN +NGQSKG+  V + SE S+  ++E
Sbjct: 4   VYVGNFSWWTTDQQLIQVIRSVGVKDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 63

Query: 133 RLPTLELHGRKPMVAYPTRNVLYQFEA 159
            LP   L+G K  V   TR  L QFEA
Sbjct: 64  LLPGKVLNGEKVDVRPATRQNLSQFEA 90

This subgroup corresponds to the RRM of CFIm59. Cleavage factor Im (CFIm) is a highly conserved component of the eukaryotic mRNA 3' processing machinery that functions in UGUA-mediated poly(A) site recognition, the regulation of alternative poly(A) site selection, mRNA export, and mRNA splicing. It is a complex composed of a small 25 kDa (CFIm25) subunit and a larger 59/68/72 kDa subunit. The two separate genes, CPSF6 and CPSF7, code for two isoforms of the large subunit, CFIm68 and CFIm59. The family includes CFIm59, also termed cleavage and polyadenylation specificity factor subunit 6 (CPSF7), or cleavage and polyadenylation specificity factor 59 kDa subunit (CPSF59). CFIm59 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a central proline-rich region, and a C-terminal RS-like domain. The N-terminal RRM of CFIm59 mediates the interaction with CFIm25. It also serves to enhance RNA binding and facilitate RNA looping. . Length = 90

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

 Score = 62.6 bits (153), Expect = 8e-14
 Identities = 25/72 (34%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
            L+VGNL   TTE ++ +     G      V+   +   G+SKGF  V   SEE     +
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFG--KVESVRLVRDKETGKSKGFAFVEFESEEDAEKAL 58

Query: 132 ERLPTLELHGRK 143
           E L   EL GR 
Sbjct: 59  EALNGKELDGRP 70

Length = 73

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

 Score = 50.7 bits (122), Expect = 2e-09
 Identities = 25/71 (35%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           L+VGNL   TTE D+ D     G      ++   +   G+SKGF  V    EE     +E
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFG--PIESIRIVRD-ETGRSKGFAFVEFEDEEDAEKALE 57

Query: 133 RLPTLELHGRK 143
            L   EL GR+
Sbjct: 58  ALNGKELGGRE 68

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

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

 Score = 50.0 bits (120), Expect = 5e-09
 Identities = 26/71 (36%), Positives = 35/71 (49%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           L+VGNL   TTE D+ +     G  +   V+   +  +G+SKGF  V   S E     +E
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFG--EIESVRIVRD-KDGKSKGFAFVEFESPEDAEKALE 57

Query: 133 RLPTLELHGRK 143
            L   EL GRK
Sbjct: 58  ALNGKELDGRK 68

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

 Score = 53.0 bits (126), Expect = 8e-09
 Identities = 28/119 (23%), Positives = 46/119 (38%), Gaps = 2/119 (1%)

Query: 25  STEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTE 84
           S   ++ +   +        +T            S    Q +   +  L+VGNL +  TE
Sbjct: 70  SERKEENEREMEEQNDGERGYTKEFEEELFRSSESPKSRQKSKEENNTLFVGNLPYDVTE 129

Query: 85  ADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK 143
            D+ +  +  G    + +    +   G+S+GF  V   SEES    +E L   EL GR 
Sbjct: 130 EDLRELFKKFGPVKRVRLVR--DRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRP 186

Length = 306

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

 Score = 47.6 bits (114), Expect = 5e-08
 Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 2/72 (2%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           NLYVGNL +  TE D+ D     G  +    +   +   G+S+GF  V + + E  +  +
Sbjct: 1   NLYVGNLPYNVTEEDLKDLFGQFG--EVTSARVITDRETGRSRGFGFVEMETAEEANAAI 58

Query: 132 ERLPTLELHGRK 143
           E+L   +  GR 
Sbjct: 59  EKLNGTDFGGRT 70

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

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

 Score = 46.4 bits (111), Expect = 1e-07
 Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 4/71 (5%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LYV NL    TE D+ +     G  + + +      +  + +GF  V   S E     ++
Sbjct: 1   LYVRNLPPSVTEEDLREFFSPYGKVEGVRLVR----NKDRPRGFAFVEFASPEDAEAALK 56

Query: 133 RLPTLELHGRK 143
           +L  L L GR 
Sbjct: 57  KLNGLVLDGRT 67

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

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

 Score = 43.9 bits (104), Expect = 1e-06
 Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 2/71 (2%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
            L+VGNL+W   +  +       G    +  +   +   G+S+GF  V   S E     +
Sbjct: 1   TLFVGNLSWSVDDEWLKAEFEKFG--TVVGARVITDRETGRSRGFGYVDFESPEDAKKAI 58

Query: 132 ERLPTLELHGR 142
           E +   EL GR
Sbjct: 59  EAMDGKELDGR 69

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

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

 Score = 42.2 bits (100), Expect = 4e-06
 Identities = 23/73 (31%), Positives = 36/73 (49%), Gaps = 3/73 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LYVGNL +  TE D+       G  +F+ ++   +   G+SKG+  +     E     +E
Sbjct: 1   LYVGNLHFNITEDDLRGIFEPFGEIEFVQLQ--RDPETGRSKGYGFIQFADAEDAKKALE 58

Query: 133 RLPTLELHGRKPM 145
           +L   EL GR P+
Sbjct: 59  QLNGFELAGR-PI 70

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

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

 Score = 43.9 bits (103), Expect = 4e-06
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 2/71 (2%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           L++G L+W T +A + DA    G  D +D K   +   G+S+GF  V    E + +  + 
Sbjct: 37  LFIGGLSWGTDDASLRDAFAHFG--DVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAIS 94

Query: 133 RLPTLELHGRK 143
            +   EL+GR 
Sbjct: 95  EMDGKELNGRH 105

Length = 144

>gnl|CDD|240767 cd12321, RRM1_TDP43, RNA recognition motif 1 in TAR DNA-binding protein 43 (TDP-43) and similar proteins

 Score = 39.7 bits (93), Expect = 4e-05
 Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 2/60 (3%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           +L V  L W TTE D+ D   + G    + VK  ++   GQSKGF  V     E    V+
Sbjct: 1   DLIVLGLPWKTTEQDLKDYFSTFGELLMVQVK--KDPKTGQSKGFGFVRFADYEDQVKVL 58

This subfamily corresponds to the RRM1 of TDP-43 (also termed TARDBP), a ubiquitously expressed pathogenic protein whose normal function and abnormal aggregation are directly linked to the genetic disease cystic fibrosis, and two neurodegenerative disorders: frontotemporal lobar degeneration (FTLD) and amyotrophic lateral sclerosis (ALS). TDP-43 binds both DNA and RNA, and has been implicated in transcriptional repression, pre-mRNA splicing and translational regulation. TDP-43 is a dimeric protein with two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal glycine-rich domain. The RRMs are responsible for DNA and RNA binding; they bind to TAR DNA and RNA sequences with UG-repeats. The glycine-rich domain can interact with the hnRNP family proteins to form the hnRNP-rich complex involved in splicing inhibition. It is also essential for the cystic fibrosis transmembrane conductance regulator (CFTR) exon 9-skipping activity. . Length = 77

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

 Score = 37.6 bits (88), Expect = 3e-04
 Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           ++V NL +  T  D+ D  R  G     DVK   +   G+SKGF TV   S E     +E
Sbjct: 1   IFVRNLPFSVTWQDLKDLFRECGNVLRADVKTDND---GRSKGFGTVLFESPEDAQRAIE 57

Query: 133 RLPTLELHGRK 143
                +L GR+
Sbjct: 58  MFNGYDLEGRE 68

This subfamily corresponds to the RRM3 of heterogeneous nuclear ribonucleoprotein M (hnRNP M), myelin expression factor 2 (MEF-2 or MyEF-2 or MST156) and similar proteins. hnRNP M is pre-mRNA binding protein that may play an important role in the pre-mRNA processing. It also preferentially binds to poly(G) and poly(U) RNA homopolymers. hnRNP M is able to interact with early spliceosomes, further influencing splicing patterns of specific pre-mRNAs. hnRNP M functions as the receptor of carcinoembryonic antigen (CEA) that contains the penta-peptide sequence PELPK signaling motif. In addition, hnRNP M and another splicing factor Nova-1 work together as dopamine D2 receptor (D2R) pre-mRNA-binding proteins. They regulate alternative splicing of D2R pre-mRNA in an antagonistic manner. hnRNP M contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an unusual hexapeptide-repeat region rich in methionine and arginine residues (MR repeat motif). MEF-2 is a sequence-specific single-stranded DNA (ssDNA) binding protein that binds specifically to ssDNA derived from the proximal (MB1) element of the myelin basic protein (MBP) promoter and represses transcription of the MBP gene. MEF-2 shows high sequence homology with hnRNP M. It also contains three RRMs, which may be responsible for its ssDNA binding activity. . Length = 72

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

 Score = 37.3 bits (87), Expect = 4e-04
 Identities = 18/54 (33%), Positives = 32/54 (59%), Gaps = 3/54 (5%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           L+VGNL+W   + D+ +  +  G  + +DV+  ++  +G+SKGF  V   +EE 
Sbjct: 2   LFVGNLSWSAEQDDLEEFFKECG--EVVDVRIAQDD-DGRSKGFGHVEFATEEG 52

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

>gnl|CDD|240718 cd12272, RRM2_PHIP1, RNA recognition motif 2 in Arabidopsis thaliana phragmoplastin interacting protein 1 (PHIP1) and similar proteins

 Score = 36.6 bits (85), Expect = 5e-04
 Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 13/64 (20%)

Query: 74  YVGNLTWWTTEADMSD-----AIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMS 128
           Y+GNL W  TE D+ +      I S        V+   +   G+ KGF  V    EES+ 
Sbjct: 3   YIGNLAWDITEDDVREFFKGCEITS--------VRLATDKETGEFKGFGHVDFADEESLD 54

Query: 129 LVME 132
             ++
Sbjct: 55  AALK 58

The CD corresponds to the RRM2 of PHIP1. A. thaliana PHIP1 and its homologs represent a novel class of plant-specific RNA-binding proteins that may play a unique role in the polarized mRNA transport to the vicinity of the cell plate. The family members consist of multiple functional domains, including a lysine-rich domain (KRD domain) that contains three nuclear localization motifs (KKKR/NK), two RNA recognition motifs (RRMs), and three CCHC-type zinc fingers. PHIP1 is a peripheral membrane protein and is localized at the cell plate during cytokinesis in plants. In addition to phragmoplastin, PHIP1 interacts with two Arabidopsis small GTP-binding proteins, Rop1 and Ran2. However, PHIP1 interacted only with the GTP-bound form of Rop1 but not the GDP-bound form. It also binds specifically to Ran2 mRNA. . Length = 72

>gnl|CDD|241200 cd12756, RRM1_hnRNPD, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

 Score = 36.5 bits (84), Expect = 6e-04
 Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 2/61 (3%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           +++G L+W TT+ D+ D     G  + +D     +   G+S+GF  V     ES+  VM+
Sbjct: 1   MFIGGLSWDTTKKDLKDYFSKFG--EVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 58

Query: 133 R 133
           +
Sbjct: 59  Q 59

This subgroup corresponds to the RRM1 of hnRNP D0, also termed AU-rich element RNA-binding protein 1, which is a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP D0 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), in the middle and an RGG box rich in glycine and arginine residues in the C-terminal part. Each of RRMs can bind solely to the UUAG sequence specifically. . Length = 74

>gnl|CDD|241066 cd12622, RRM3_PUB1, RNA recognition motif 3 in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins

 Score = 35.5 bits (82), Expect = 0.001
 Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 8/69 (11%)

Query: 74  YVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMER 133
           YVGN+  +TT+AD+        +P F +  +     +   +GF  V L + E  ++ + +
Sbjct: 4   YVGNIPPYTTQADL--------IPLFQNFGYILEFRHQPDRGFAFVKLDTHEQAAMAIVQ 55

Query: 134 LPTLELHGR 142
           L    +HGR
Sbjct: 56  LQGFPVHGR 64

This subfamily corresponds to the RRM3 of yeast protein PUB1, also termed ARS consensus-binding protein ACBP-60, or poly uridylate-binding protein, or poly(U)-binding protein. PUB1 has been identified as both, a heterogeneous nuclear RNA-binding protein (hnRNP) and a cytoplasmic mRNA-binding protein (mRNP), which may be stably bound to a translationally inactive subpopulation of mRNAs within the cytoplasm. PUB1 is distributed in both, the nucleus and the cytoplasm, and binds to poly(A)+ RNA (mRNA or pre-mRNA). Although it is one of the major cellular proteins cross-linked by UV light to polyadenylated RNAs in vivo, PUB1 is nonessential for cell growth in yeast. PUB1 also binds to T-rich single stranded DNA (ssDNA); however, there is no strong evidence implicating PUB1 in the mechanism of DNA replication. PUB1 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a GAR motif (glycine and arginine rich stretch) that is located between RRM2 and RRM3. . Length = 74

>gnl|CDD|240863 cd12417, RRM_SAFB_like, RNA recognition motif in the scaffold attachment factor (SAFB) family

 Score = 34.6 bits (80), Expect = 0.003
 Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 2/71 (2%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           NL+V  L+  T  AD+       G    +  K   NA +  ++ F  VT+ S E  +  +
Sbjct: 1   NLWVSGLSSTTKAADLKQLFSKYG--KVVGAKIVTNARSPGARCFGFVTMASVEEAAKCI 58

Query: 132 ERLPTLELHGR 142
           + L   ELHGR
Sbjct: 59  QHLHRTELHGR 69

This subfamily corresponds to the RRM domain of the SAFB family, including scaffold attachment factor B1 (SAFB1), scaffold attachment factor B2 (SAFB2), SAFB-like transcriptional modulator (SLTM), and similar proteins, which are ubiquitously expressed. SAFB1, SAFB2 and SLTM have been implicated in many diverse cellular processes including cell growth and transformation, stress response, and apoptosis. They share high sequence similarities and all contain a scaffold attachment factor-box (SAF-box, also known as SAP domain) DNA-binding motif, an RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a region rich in glutamine and arginine residues. SAFB1 is a nuclear protein with a distribution similar to that of SLTM, but unlike that of SAFB2, which is also found in the cytoplasm. To a large extent, SAFB1 and SLTM might share similar functions, such as the inhibition of an oestrogen reporter gene. The additional cytoplasmic localization of SAFB2 implies that it could play additional roles in the cytoplasmic compartment which are distinct from the nuclear functions shared with SAFB1 and SLTM. . Length = 74

>gnl|CDD|241019 cd12575, RRM1_hnRNPD_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins

 Score = 34.5 bits (79), Expect = 0.003
 Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 2/60 (3%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           ++VG L+W TT+ D+ +     G  + +D     +   G+S+GF  V      S+  V++
Sbjct: 1   MFVGGLSWDTTKKDLKEYFSKFG--EVVDCTIKIDPVTGRSRGFGFVLFKDAASVEKVLD 58

This subfamily corresponds to the RRM1 in hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins. hnRNP D0 is a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP A/B is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. hnRNP A/B has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus plays an important role in apoB mRNA editing. hnRNP DL (or hnRNP D-like) is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. All members in this family contain two putative RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glycine- and tyrosine-rich C-terminus. . Length = 74

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

 Score = 34.8 bits (81), Expect = 0.003
 Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 3/79 (3%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS-EESMSLVM 131
           L +  L   TTE D+  A+ +I      DV+   +   G S+GF  V   S E++   + 
Sbjct: 5   LILRGLDLLTTEEDILQALSAIASVPIKDVRLIRDKLTGTSRGFAFVEFPSLEDATQWMD 64

Query: 132 E--RLPTLELHGRKPMVAY 148
               L    + GR   V+Y
Sbjct: 65  ALNNLDPFVIDGRVVRVSY 83

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|241202 cd12758, RRM1_hnRPDL, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein D-like (hnRNP D-like or hnRNP DL) and similar proteins

 Score = 34.2 bits (78), Expect = 0.004
 Identities = 15/60 (25%), Positives = 32/60 (53%), Gaps = 2/60 (3%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           +++G L+W T++ D+++ +   G  + +D     +   G+S+GF  V      S+  V+E
Sbjct: 2   MFIGGLSWDTSKKDLTEYLSRFG--EVLDCTIKTDPVTGRSRGFGFVLFKDAASVDKVLE 59

This subgroup corresponds to the RRM1 of hnRNP DL (or hnRNP D-like), also termed AU-rich element RNA-binding factor, or JKT41-binding protein (protein laAUF1 or JKTBP), which is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. hnRNP DL binds single-stranded DNA (ssDNA) or double-stranded DNA (dsDNA) in a non-sequencespecific manner, and interacts with poly(G) and poly(A) tenaciously. It contains two putative two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glycine- and tyrosine-rich C-terminus. . Length = 76

>gnl|CDD|241085 cd12641, RRM_TRA2B, RNA recognition motif in Transformer-2 protein homolog beta (TRA-2 beta) and similar proteins

 Score = 34.6 bits (79), Expect = 0.004
 Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 2/86 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           ++A    +C L V  L+ +TTE D+ +     G     DV    +  + +S+GF  V   
Sbjct: 2   NRANPDPNCCLGVFGLSLYTTERDLREVFSKYG--PIADVSIVYDQQSRRSRGFAFVYFE 59

Query: 123 SEESMSLVMERLPTLELHGRKPMVAY 148
           + +      ER   +EL GR+  V +
Sbjct: 60  NVDDAKEAKERANGMELDGRRIRVDF 85

This subgroup corresponds to the RRM of TRA2-beta or TRA-2-beta, also termed splicing factor, arginine/serine-rich 10 (SFRS10), or transformer-2 protein homolog B, a mammalian homolog of Drosophila transformer-2 (Tra2). TRA2-beta is a serine/arginine-rich (SR) protein that controls the pre-mRNA alternative splicing of the calcitonin/calcitonin gene-related peptide (CGRP), the survival motor neuron 1 (SMN1) protein and the tau protein. It contains a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), flanked by the N- and C-terminal arginine/serine (RS)-rich regions. TRA2-beta specifically binds to two types of RNA sequences, the CAA and (GAA)2 sequences, through the RRMs in different RNA binding modes. . Length = 89

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	172
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.84
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.79
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.76
KOG0122|consensus	270		99.76
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.75
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.74
KOG0149|consensus	247		99.72
KOG0125|consensus	376		99.7
KOG0121|consensus	153		99.7
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.68
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.67
KOG0130|consensus	170		99.67
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.67
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.66
KOG4207|consensus	256		99.65
PLN03120	260	nucleic acid binding protein; Provisional	99.64
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.64
PLN03213	759	repressor of silencing 3; Provisional	99.64
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.64
KOG0145|consensus	360		99.63
KOG0148|consensus	321		99.63
KOG0107|consensus	195		99.62
KOG0113|consensus	335		99.62
KOG0145|consensus	360		99.62
KOG0117|consensus	506		99.61
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.6
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.6
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.59
smart00362	72	RRM_2 RNA recognition motif.	99.59
PLN03121	243	nucleic acid binding protein; Provisional	99.59
KOG0108|consensus	435		99.58
smart00360	71	RRM RNA recognition motif.	99.57
KOG0131|consensus	203		99.56
KOG0148|consensus	321		99.56
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.56
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.56
KOG0111|consensus	298		99.55
KOG0146|consensus	371		99.55
KOG0126|consensus	219		99.54
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.53
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.52
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.51
KOG0144|consensus	510		99.51
KOG0124|consensus	544		99.5
KOG0127|consensus	678		99.46
KOG0131|consensus	203		99.43
KOG0114|consensus	124		99.43
smart00361	70	RRM_1 RNA recognition motif.	99.43
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.41
KOG0105|consensus	241		99.39
KOG0144|consensus	510		99.39
KOG0127|consensus	678		99.38
KOG0147|consensus	549		99.38
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.37
KOG4849|consensus	498		99.35
KOG4661|consensus	940		99.34
KOG0109|consensus	346		99.34
KOG0117|consensus	506		99.33
KOG4208|consensus	214		99.31
KOG0415|consensus	479		99.3
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.25
KOG4206|consensus	221		99.24
KOG4212|consensus	608		99.23
KOG0123|consensus	369		99.19
KOG0116|consensus	419		99.17
KOG0110|consensus	725		99.13
KOG0153|consensus	377		99.13
KOG0123|consensus	369		99.12
KOG4205|consensus	311		99.11
KOG4212|consensus	608		99.11
KOG1548|consensus	382		99.08
KOG0146|consensus	371		99.08
KOG0226|consensus	290		99.07
KOG0109|consensus	346		99.06
KOG0110|consensus	725		99.04
KOG0124|consensus	544		99.03
KOG0533|consensus	243		99.03
KOG0132|consensus	894		99.01
KOG4209|consensus	231		98.94
KOG4205|consensus	311		98.9
KOG1457|consensus	284		98.87
KOG0151|consensus	877		98.81
KOG0106|consensus	216		98.8
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.8
KOG4211|consensus	510		98.77
KOG4454|consensus	267		98.74
KOG4660|consensus	549		98.72
KOG0120|consensus	500		98.56
KOG1190|consensus	492		98.54
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	98.46
KOG4211|consensus	510		98.44
KOG1995|consensus	351		98.36
KOG1456|consensus	494		98.21
KOG1457|consensus	284		98.08
KOG0106|consensus	216		98.08
KOG0147|consensus	549		98.08
KOG4210|consensus	285		98.04
KOG4206|consensus	221		97.98
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.81
KOG4307|consensus	944		97.73
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.71
KOG1365|consensus	508		97.66
KOG3152|consensus	278		97.61
KOG0105|consensus	241		97.58
KOG2314|consensus	698		97.51
KOG1190|consensus	492		97.45
KOG1548|consensus	382		97.38
KOG1365|consensus	508		97.33
KOG1456|consensus	494		97.18
KOG0120|consensus	500		97.15
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	97.13
KOG2193|consensus	584		97.09
KOG0129|consensus	520		97.04
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	96.94
KOG2416|consensus	718		96.88
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	96.86
KOG0112|consensus	975		96.85
KOG0128|consensus	881		96.82
KOG0129|consensus	520		96.78
KOG4307|consensus	944		96.66
KOG2253|consensus	668		96.61
KOG4676|consensus	479		96.5
KOG0128|consensus	881		96.48
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	96.47
KOG2202|consensus	260		96.46
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	96.26
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	96.21
KOG1855|consensus	484		95.91
KOG0115|consensus	275		95.84
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	95.79
KOG2068|consensus	327		95.66
KOG1996|consensus	378		95.55
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	95.4
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	95.2
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	95.16
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	94.75
KOG0112|consensus	975		94.09
KOG4410|consensus	396		93.9
KOG2591|consensus	684		93.82
KOG4210|consensus	285		93.36
KOG4285|consensus	350		92.49
KOG2135|consensus	526		91.66
KOG0804|consensus	493		89.35
KOG4660|consensus	549		89.21
smart00596	69	PRE_C2HC PRE_C2HC domain.	88.55
KOG4574|consensus	1007		86.92
KOG4676|consensus	479		85.1
PF07530	68	PRE_C2HC: Associated with zinc fingers; InterPro:	84.67
KOG4483|consensus	528		82.1

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

Probab=99.84  E-value=4.3e-20  Score=131.45  Aligned_cols=86  Identities=27%  Similarity=0.475  Sum_probs=80.3

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+||++.+++++|+++|.+||  .|..+.|+.|+.+++++|||||+|.+.++|+.||+.||+..|+|+.|+|
T Consensus        31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G--~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V  108 (144)
T PLN03134         31 RLMSTKLFIGGLSWGTDDASLRDAFAHFG--DVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRV  108 (144)
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHhcCC--CeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            34567899999999999999999999999  9999999999999999999999999999999999999999999999999


Q ss_pred             eccCCCCc
Q psy8001         147 AYPTRNVL  154 (172)
Q Consensus       147 ~~a~~~~~  154 (172)
                      +++..+..
T Consensus       109 ~~a~~~~~  116 (144)
T PLN03134        109 NPANDRPS  116 (144)
T ss_pred             EeCCcCCC
Confidence            99986543

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.79  E-value=1.7e-18  Score=139.51  Aligned_cols=84  Identities=20%  Similarity=0.277  Sum_probs=79.3

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...+.+|||+|||+.+++++|+++|++||  .|..++|++|+.+|.++|||||+|.+.++|.+||..|||..|+||.|+|
T Consensus       266 ~~~~~~lfV~NL~~~~~e~~L~~~F~~fG--~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V  343 (352)
T TIGR01661       266 DGAGYCIFVYNLSPDTDETVLWQLFGPFG--AVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQV  343 (352)
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhCC--CeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            34456899999999999999999999999  9999999999999999999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .|+..+
T Consensus       344 ~~~~~~  349 (352)
T TIGR01661       344 SFKTNK  349 (352)
T ss_pred             EEccCC
Confidence            998754

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.76  E-value=4.6e-18  Score=137.04  Aligned_cols=82  Identities=26%  Similarity=0.341  Sum_probs=78.2

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||..+++++|+++|+.||  .|..|+|++|+.+|+++|||||+|.+.++|++||+.|||..|.|+.|+|++
T Consensus         2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G--~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~   79 (352)
T TIGR01661         2 SKTNLIVNYLPQTMTQEEIRSLFTSIG--EIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSY   79 (352)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHccC--CEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEe
Confidence            357899999999999999999999999  999999999999999999999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      +++.
T Consensus        80 a~~~   83 (352)
T TIGR01661        80 ARPS   83 (352)
T ss_pred             eccc
Confidence            8753

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

>KOG0122|consensus

Probab=99.76  E-value=1.3e-17  Score=124.55  Aligned_cols=84  Identities=21%  Similarity=0.281  Sum_probs=80.7

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ..+.++|-|.||+.+++|++|+++|.+||  .+..+.|.+|+.||.++|||||.|.+.++|.+||+.|||.-+++-.|+|
T Consensus       186 R~D~~tvRvtNLsed~~E~dL~eLf~~fg--~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrv  263 (270)
T KOG0122|consen  186 RDDEATVRVTNLSEDMREDDLEELFRPFG--PITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRV  263 (270)
T ss_pred             CCccceeEEecCccccChhHHHHHhhccC--ccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEE
Confidence            44678899999999999999999999999  9999999999999999999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      +|++|+
T Consensus       264 EwskP~  269 (270)
T KOG0122|consen  264 EWSKPS  269 (270)
T ss_pred             EecCCC
Confidence            999985

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.75  E-value=7.2e-18  Score=135.57  Aligned_cols=85  Identities=24%  Similarity=0.359  Sum_probs=80.2

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|..||  .|..|+|+.|+.+++++|||||+|.+.++|++||+.||+..|.+++|
T Consensus       102 ~~~~~~~~LfVgnLp~~~te~~L~~lF~~~G--~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i  179 (346)
T TIGR01659       102 DTNNSGTNLIVNYLPQDMTDRELYALFRTIG--PINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRL  179 (346)
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCcee
Confidence            3445678999999999999999999999999  99999999999999999999999999999999999999999999999


Q ss_pred             EEeccCC
Q psy8001         145 MVAYPTR  151 (172)
Q Consensus       145 ~v~~a~~  151 (172)
                      +|.++++
T Consensus       180 ~V~~a~p  186 (346)
T TIGR01659       180 KVSYARP  186 (346)
T ss_pred             eeecccc
Confidence            9999875

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=99.74  E-value=2e-17  Score=102.96  Aligned_cols=70  Identities=37%  Similarity=0.544  Sum_probs=66.7

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        73 v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      |||+|||..+++++|+++|++||  .+..+.+..+ .++..+|||||+|.+.++|++|++.|||..+.|+.|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g--~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFG--KIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTS--TEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhh--hccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            79999999999999999999999  8999999998 4888999999999999999999999999999999875

(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 ....

>KOG0149|consensus

Probab=99.72  E-value=2.1e-17  Score=122.93  Aligned_cols=81  Identities=21%  Similarity=0.468  Sum_probs=74.9

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      +..-++||||+|+|.+..++|+++|.+||  .|.+..|+.|+.+|++||||||+|++.++|.+|++- -...|+||+-+|
T Consensus         9 DT~~TKifVggL~w~T~~~~l~~yFeqfG--eI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNc   85 (247)
T KOG0149|consen    9 DTTFTKIFVGGLAWETHKETLRRYFEQFG--EIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANC   85 (247)
T ss_pred             CceEEEEEEcCcccccchHHHHHHHHHhC--ceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCccccccccc
Confidence            44457899999999999999999999999  999999999999999999999999999999999984 557899999999


Q ss_pred             eccC
Q psy8001         147 AYPT  150 (172)
Q Consensus       147 ~~a~  150 (172)
                      ++|.
T Consensus        86 nlA~   89 (247)
T KOG0149|consen   86 NLAS   89 (247)
T ss_pred             chhh
Confidence            9876

>KOG0125|consensus

Probab=99.70  E-value=1.8e-16  Score=122.86  Aligned_cols=83  Identities=25%  Similarity=0.314  Sum_probs=75.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ....+|+|+|||+...+-||+.+|.+||  .|..|.|+.+.  ..+||||||+|.+.++|++|.+.|||..+.||+|.|.
T Consensus        94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG--~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn  169 (376)
T KOG0125|consen   94 DTPKRLHVSNIPFRFRDPDLRAMFEKFG--KVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVN  169 (376)
T ss_pred             CCCceeEeecCCccccCccHHHHHHhhC--ceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEe
Confidence            3446899999999999999999999999  99999999873  4579999999999999999999999999999999999


Q ss_pred             ccCCCCc
Q psy8001         148 YPTRNVL  154 (172)
Q Consensus       148 ~a~~~~~  154 (172)
                      .|..+..
T Consensus       170 ~ATarV~  176 (376)
T KOG0125|consen  170 NATARVH  176 (376)
T ss_pred             ccchhhc
Confidence            9987543

>KOG0121|consensus

Probab=99.70  E-value=5.6e-17  Score=110.27  Aligned_cols=82  Identities=22%  Similarity=0.393  Sum_probs=77.3

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++||||||.+.++|+.|.++|+.+|  .|..|.+-.|+.+-...|||||+|.+.++|+.|++.++|..|+.+.|++.
T Consensus        34 r~S~tvyVgNlSfyttEEqiyELFs~cG--~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D  111 (153)
T KOG0121|consen   34 RKSCTVYVGNLSFYTTEEQIYELFSKCG--DIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRID  111 (153)
T ss_pred             hhcceEEEeeeeeeecHHHHHHHHHhcc--chheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeee
Confidence            3458999999999999999999999999  99999999999888899999999999999999999999999999999999


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      |...
T Consensus       112 ~D~G  115 (153)
T KOG0121|consen  112 WDAG  115 (153)
T ss_pred             cccc
Confidence            9853

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

Probab=99.68  E-value=2.3e-16  Score=133.79  Aligned_cols=81  Identities=25%  Similarity=0.451  Sum_probs=77.1

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++||||||++.+++++|+++|.+||  .|..|+|++|+.+|+++|||||+|.+.++|++|++.|||..|+||.|+|.
T Consensus       105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG--~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~  182 (612)
T TIGR01645       105 AIMCRVYVGSISFELREDTIRRAFDPFG--PIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG  182 (612)
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHHHccC--CEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeec
Confidence            4568999999999999999999999999  99999999999999999999999999999999999999999999999998


Q ss_pred             ccC
Q psy8001         148 YPT  150 (172)
Q Consensus       148 ~a~  150 (172)
                      +..
T Consensus       183 rp~  185 (612)
T TIGR01645       183 RPS  185 (612)
T ss_pred             ccc
Confidence            654

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.

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.67  E-value=2.9e-16  Score=98.18  Aligned_cols=70  Identities=36%  Similarity=0.517  Sum_probs=64.7

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        73 v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      |||+|||+++++++|+++|+.+|  .+..+++..++. +..+|+|||+|.+.++|..|++.+++..++|++|+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g--~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFG--PVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSS--BEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcC--CcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            79999999999999999999999  899999999986 88999999999999999999999999999999875

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 ....

>KOG0130|consensus

Probab=99.67  E-value=1.7e-16  Score=108.95  Aligned_cols=86  Identities=19%  Similarity=0.254  Sum_probs=80.9

Q ss_pred             CCCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc
Q psy8001          64 QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK  143 (172)
Q Consensus        64 ~~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~  143 (172)
                      |...-.++.|||.++...++|++|.+.|..||  .|..+++..|+.||..+|||+|+|.+..+|++|+..|||..|.|+.
T Consensus        66 PqrSVEGwIi~VtgvHeEatEedi~d~F~dyG--eiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~  143 (170)
T KOG0130|consen   66 PQRSVEGWIIFVTGVHEEATEEDIHDKFADYG--EIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQN  143 (170)
T ss_pred             CccceeeEEEEEeccCcchhHHHHHHHHhhcc--cccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCc
Confidence            34455689999999999999999999999999  9999999999999999999999999999999999999999999999


Q ss_pred             cEEeccCC
Q psy8001         144 PMVAYPTR  151 (172)
Q Consensus       144 l~v~~a~~  151 (172)
                      |.|.|+--
T Consensus       144 v~VDw~Fv  151 (170)
T KOG0130|consen  144 VSVDWCFV  151 (170)
T ss_pred             eeEEEEEe
Confidence            99999964

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

Probab=99.67  E-value=4.1e-16  Score=132.28  Aligned_cols=83  Identities=14%  Similarity=0.238  Sum_probs=78.7

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+||++.+++++|+++|+.||  .|..++|.+++.+|+++|||||+|.+.++|..||+.||+..|+|+.|+|.+
T Consensus       203 ~~~rLfVgnLp~~vteedLk~lFs~FG--~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~k  280 (612)
T TIGR01645       203 KFNRIYVASVHPDLSETDIKSVFEAFG--EIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGK  280 (612)
T ss_pred             ccceEEeecCCCCCCHHHHHHHHhhcC--CeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEe
Confidence            446899999999999999999999999  999999999998999999999999999999999999999999999999999


Q ss_pred             cCCCC
Q psy8001         149 PTRNV  153 (172)
Q Consensus       149 a~~~~  153 (172)
                      +...+
T Consensus       281 Ai~pP  285 (612)
T TIGR01645       281 CVTPP  285 (612)
T ss_pred             cCCCc
Confidence            98654

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.

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.66  E-value=7.3e-16  Score=124.01  Aligned_cols=82  Identities=18%  Similarity=0.313  Sum_probs=76.4

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC--cccEE
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG--RKPMV  146 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g--~~l~v  146 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..++|++++.+++++|||||+|.+.++|++||+.||+..+.+  +.|+|
T Consensus       192 ~~~~lfV~nLp~~vtee~L~~~F~~fG--~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V  269 (346)
T TIGR01659       192 KDTNLYVTNLPRTITDDQLDTIFGKYG--QIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTV  269 (346)
T ss_pred             ccceeEEeCCCCcccHHHHHHHHHhcC--CEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEE
Confidence            356899999999999999999999999  89999999999999999999999999999999999999998876  68999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .+++..
T Consensus       270 ~~a~~~  275 (346)
T TIGR01659       270 RLAEEH  275 (346)
T ss_pred             EECCcc
Confidence            998753

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).

>KOG4207|consensus

Probab=99.65  E-value=3e-16  Score=114.82  Aligned_cols=86  Identities=22%  Similarity=0.278  Sum_probs=81.8

Q ss_pred             CCCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc
Q psy8001          64 QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK  143 (172)
Q Consensus        64 ~~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~  143 (172)
                      +++....+.|.|-||.+.++.++|+.+|++||  .|-.|.|.+|+.|+.++|||||-|.+..+|+.|+++|+|.+|+|+.
T Consensus         7 PPdv~gm~SLkVdNLTyRTspd~LrrvFekYG--~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRe   84 (256)
T KOG4207|consen    7 PPDVEGMTSLKVDNLTYRTSPDDLRRVFEKYG--RVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRE   84 (256)
T ss_pred             CCCcccceeEEecceeccCCHHHHHHHHHHhC--cccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccce
Confidence            46667788999999999999999999999999  9999999999999999999999999999999999999999999999


Q ss_pred             cEEeccCC
Q psy8001         144 PMVAYPTR  151 (172)
Q Consensus       144 l~v~~a~~  151 (172)
                      |.|..|+-
T Consensus        85 lrVq~ary   92 (256)
T KOG4207|consen   85 LRVQMARY   92 (256)
T ss_pred             eeehhhhc
Confidence            99999873

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.64  E-value=1.5e-15  Score=116.00  Aligned_cols=76  Identities=14%  Similarity=0.144  Sum_probs=70.5

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .++|||+||++.+++++|+++|+.||  .|..|.|+.++.   .+|||||+|.+.++|+.||. |||..|.|+.|+|.++
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G--~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a   77 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSG--DIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPA   77 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEec
Confidence            46899999999999999999999999  999999998763   46899999999999999996 9999999999999998


Q ss_pred             CC
Q psy8001         150 TR  151 (172)
Q Consensus       150 ~~  151 (172)
                      ..
T Consensus        78 ~~   79 (260)
T PLN03120         78 ED   79 (260)
T ss_pred             cC
Confidence            73

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

Probab=99.64  E-value=1.4e-15  Score=129.81  Aligned_cols=78  Identities=23%  Similarity=0.384  Sum_probs=75.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccCC
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTR  151 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~~  151 (172)
                      +|||+|||..++|++|+++|++||  .|..|+|++|+.+++++|||||+|.+.++|++||+.||+..|.|+.|+|.|+..
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G--~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~   79 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFG--PVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQR   79 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccc
Confidence            799999999999999999999999  899999999999999999999999999999999999999999999999999864

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

>PLN03213 repressor of silencing 3; Provisional

Probab=99.64  E-value=1.3e-15  Score=123.90  Aligned_cols=81  Identities=15%  Similarity=0.252  Sum_probs=73.7

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCH--HHHHHHHHHCCCceeCCccc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE--ESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~--~~a~~al~~l~g~~l~g~~l  144 (172)
                      ...+.+||||||++.+++++|+..|+.||  .|..|.|++.  +|  +|||||+|.+.  .++.+||..|||..+.|+.|
T Consensus         7 ~~~gMRIYVGNLSydVTEDDLravFSeFG--sVkdVEIpRE--TG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~L   80 (759)
T PLN03213          7 GGGGVRLHVGGLGESVGRDDLLKIFSPMG--TVDAVEFVRT--KG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRL   80 (759)
T ss_pred             CCcceEEEEeCCCCCCCHHHHHHHHHhcC--CeeEEEEecc--cC--CceEEEEecCCcHHHHHHHHHHhcCCeecCcee
Confidence            44568999999999999999999999999  9999999944  66  89999999977  78999999999999999999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      +|..|++.-
T Consensus        81 KVNKAKP~Y   89 (759)
T PLN03213         81 RLEKAKEHY   89 (759)
T ss_pred             EEeeccHHH
Confidence            999998743

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

Probab=99.64  E-value=6.2e-15  Score=124.30  Aligned_cols=82  Identities=20%  Similarity=0.345  Sum_probs=77.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ....+|||+|||+.+++++|+++|..||  .+..+.|+.++.+|.++|||||+|.+.++|..||+.|||..|+|+.|.|.
T Consensus       293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G--~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~  370 (509)
T TIGR01642       293 DSKDRIYIGNLPLYLGEDQIKELLESFG--DLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQ  370 (509)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence            3457899999999999999999999999  89999999999899999999999999999999999999999999999999


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      ++..
T Consensus       371 ~a~~  374 (509)
T TIGR01642       371 RACV  374 (509)
T ss_pred             ECcc
Confidence            9864

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

>KOG0145|consensus

Probab=99.63  E-value=9.4e-16  Score=115.84  Aligned_cols=85  Identities=24%  Similarity=0.316  Sum_probs=80.9

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|.|.-||..++++|++.+|...|  .|++|++++|+.+|++-||+||.|-++++|++||..|||..|..+.|+|
T Consensus        38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiG--eiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKV  115 (360)
T KOG0145|consen   38 DESKTNLIVNYLPQNMTQDELRSLFGSIG--EIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKV  115 (360)
T ss_pred             CcccceeeeeecccccCHHHHHHHhhccc--ceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEE
Confidence            45677899999999999999999999999  9999999999999999999999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      ++|++.+
T Consensus       116 SyARPSs  122 (360)
T KOG0145|consen  116 SYARPSS  122 (360)
T ss_pred             EeccCCh
Confidence            9998743

>KOG0148|consensus

Probab=99.63  E-value=1.1e-15  Score=115.91  Aligned_cols=84  Identities=21%  Similarity=0.379  Sum_probs=80.2

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...+-|||+.|...++-+.|++.|.+||  .|..++|++|..|+++|||+||.|.+.++|+.||..|||.=|++|.|+..
T Consensus        60 ~~hfhvfvgdls~eI~~e~lr~aF~pFG--evS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTN  137 (321)
T KOG0148|consen   60 NQHFHVFVGDLSPEIDNEKLREAFAPFG--EVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTN  137 (321)
T ss_pred             ccceeEEehhcchhcchHHHHHHhcccc--ccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecc
Confidence            3367899999999999999999999999  99999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      ||.+++
T Consensus       138 WATRKp  143 (321)
T KOG0148|consen  138 WATRKP  143 (321)
T ss_pred             ccccCc
Confidence            998765

>KOG0107|consensus

Probab=99.62  E-value=1.4e-15  Score=108.55  Aligned_cols=78  Identities=22%  Similarity=0.307  Sum_probs=71.0

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++||||||+..+++.||...|..||  .+..|-|-.+     ..|||||+|.+.-+|+.|+..|+|..|+|..|+|+
T Consensus         8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG--~lrsvWvArn-----PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE   80 (195)
T KOG0107|consen    8 NGNTKVYVGNLGSRATKRELERAFSKYG--PLRSVWVARN-----PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVE   80 (195)
T ss_pred             CCCceEEeccCCCCcchHHHHHHHHhcC--cceeEEEeec-----CCCceEEeccCcccHHHHHhhcCCccccCceEEEE
Confidence            4578999999999999999999999999  8888877554     58999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      .+.-.
T Consensus        81 ~S~G~   85 (195)
T KOG0107|consen   81 LSTGR   85 (195)
T ss_pred             eecCC
Confidence            98753

>KOG0113|consensus

Probab=99.62  E-value=3.8e-15  Score=114.24  Aligned_cols=89  Identities=18%  Similarity=0.355  Sum_probs=82.3

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      +..++=++|||+-|++.++|..|+..|..||  .|..|+|++|+.||+++|||||+|...-+..+|.+..+|..|+|+.|
T Consensus        96 a~gDPy~TLFv~RLnydT~EskLrreF~~YG--~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri  173 (335)
T KOG0113|consen   96 AIGDPYKTLFVARLNYDTSESKLRREFEKYG--PIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRI  173 (335)
T ss_pred             ccCCccceeeeeeccccccHHHHHHHHHhcC--cceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEE
Confidence            3456678999999999999999999999999  99999999999999999999999999999999999999999999999


Q ss_pred             EEeccCCCCcc
Q psy8001         145 MVAYPTRNVLY  155 (172)
Q Consensus       145 ~v~~a~~~~~~  155 (172)
                      .|.+-......
T Consensus       174 ~VDvERgRTvk  184 (335)
T KOG0113|consen  174 LVDVERGRTVK  184 (335)
T ss_pred             EEEeccccccc
Confidence            99988764433

>KOG0145|consensus

Probab=99.62  E-value=3.3e-15  Score=112.92  Aligned_cols=86  Identities=20%  Similarity=0.266  Sum_probs=80.6

Q ss_pred             CCCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc
Q psy8001          64 QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK  143 (172)
Q Consensus        64 ~~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~  143 (172)
                      +.....+++|||-||.++++|.-|+++|.+||  .+..|+|++|-.+.+++||+||++.+.++|..||..|||..+++|.
T Consensus       272 p~~~~~g~ciFvYNLspd~de~~LWQlFgpFG--Av~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rv  349 (360)
T KOG0145|consen  272 PGGPGGGWCIFVYNLSPDADESILWQLFGPFG--AVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRV  349 (360)
T ss_pred             CCCCCCeeEEEEEecCCCchHhHHHHHhCccc--ceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceE
Confidence            34456689999999999999999999999999  9999999999989999999999999999999999999999999999


Q ss_pred             cEEeccCC
Q psy8001         144 PMVAYPTR  151 (172)
Q Consensus       144 l~v~~a~~  151 (172)
                      |.|++...
T Consensus       350 LQVsFKtn  357 (360)
T KOG0145|consen  350 LQVSFKTN  357 (360)
T ss_pred             EEEEEecC
Confidence            99998754

>KOG0117|consensus

Probab=99.61  E-value=2.3e-15  Score=120.82  Aligned_cols=82  Identities=18%  Similarity=0.408  Sum_probs=76.7

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC-CcccEE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH-GRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~-g~~l~v  146 (172)
                      ..+|-||||.||.++.|++|..+|.+.|  .|-.++||+|+++|.++|||||+|.+.++|+.||+.||+.+|. |+.|.|
T Consensus        81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG--~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igv  158 (506)
T KOG0117|consen   81 PRGCEVFVGKIPRDVFEDELVPLFEKIG--KIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGV  158 (506)
T ss_pred             CCCceEEecCCCccccchhhHHHHHhcc--ceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEE
Confidence            6789999999999999999999999999  9999999999999999999999999999999999999999885 888887


Q ss_pred             eccCC
Q psy8001         147 AYPTR  151 (172)
Q Consensus       147 ~~a~~  151 (172)
                      ..+-.
T Consensus       159 c~Sva  163 (506)
T KOG0117|consen  159 CVSVA  163 (506)
T ss_pred             EEeee
Confidence            76653

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

Probab=99.60  E-value=5.8e-15  Score=123.01  Aligned_cols=79  Identities=32%  Similarity=0.537  Sum_probs=76.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..+|||+||+..+++++|+++|..||  .|..|.++.++.+|+++|||||+|.+.++|..|++.|||..|.|+.|+|.++
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G--~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a  263 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFG--DIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYA  263 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcC--CeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEc
Confidence            57899999999999999999999999  8999999999988999999999999999999999999999999999999997


Q ss_pred             C
Q psy8001         150 T  150 (172)
Q Consensus       150 ~  150 (172)
                      .
T Consensus       264 ~  264 (457)
T TIGR01622       264 Q  264 (457)
T ss_pred             c
Confidence            6

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

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

Probab=99.60  E-value=5.9e-15  Score=124.94  Aligned_cols=80  Identities=20%  Similarity=0.388  Sum_probs=73.4

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC-CcccEE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH-GRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~-g~~l~v  146 (172)
                      ..+++|||+|||++++|++|+++|+++|  .|..++|++| .+|+++|||||+|.+.++|++||+.||+..|. |+.|.|
T Consensus        56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G--~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V  132 (578)
T TIGR01648        56 GRGCEVFVGKIPRDLYEDELVPLFEKAG--PIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGV  132 (578)
T ss_pred             CCCCEEEeCCCCCCCCHHHHHHHHHhhC--CEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccc
Confidence            3568999999999999999999999999  8999999999 69999999999999999999999999999885 788777


Q ss_pred             eccC
Q psy8001         147 AYPT  150 (172)
Q Consensus       147 ~~a~  150 (172)
                      ..+.
T Consensus       133 ~~S~  136 (578)
T TIGR01648       133 CISV  136 (578)
T ss_pred             cccc
Confidence            6654

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.

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

Probab=99.59  E-value=7.6e-15  Score=125.32  Aligned_cols=83  Identities=24%  Similarity=0.354  Sum_probs=77.7

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+||++.+++++|+++|+.||  .|..++++.+. +|.++|||||+|.+.++|.+|+..|||..++|+.|.|
T Consensus       282 ~~~~~~l~V~nl~~~~~~~~L~~~F~~~G--~i~~~~i~~d~-~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V  358 (562)
T TIGR01628       282 KAQGVNLYVKNLDDTVTDEKLRELFSECG--EITSAKVMLDE-KGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYV  358 (562)
T ss_pred             ccCCCEEEEeCCCCccCHHHHHHHHHhcC--CeEEEEEEECC-CCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEE
Confidence            34567899999999999999999999999  89999999994 8999999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .++.++
T Consensus       359 ~~a~~k  364 (562)
T TIGR01628       359 ALAQRK  364 (562)
T ss_pred             EeccCc
Confidence            999864

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

>smart00362 RRM_2 RNA recognition motif

Probab=99.59  E-value=1.4e-14  Score=89.41  Aligned_cols=72  Identities=36%  Similarity=0.484  Sum_probs=67.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      +|||+|||..+++++|+++|.++|  .+..+.+..++  +.++|+|||+|.+.++|+.|++.|++..+.|++|.|+
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g--~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFG--PIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcC--CEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            489999999999999999999999  89999988876  6788999999999999999999999999999998874

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.59  E-value=1.1e-14  Score=109.91  Aligned_cols=76  Identities=16%  Similarity=0.110  Sum_probs=69.9

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      .+++|||+||++.+++++|+++|+.||  .|..|+|+++.   ..+|||||+|.+.++++.|+. |+|..|.++.|.|..
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~~G--~I~~V~I~~D~---et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~   77 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSHCG--AIEHVEIIRSG---EYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITR   77 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHhcC--CeEEEEEecCC---CcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEe
Confidence            568999999999999999999999999  99999999874   456899999999999999995 999999999999987


Q ss_pred             cC
Q psy8001         149 PT  150 (172)
Q Consensus       149 a~  150 (172)
                      ..
T Consensus        78 ~~   79 (243)
T PLN03121         78 WG   79 (243)
T ss_pred             Cc
Confidence            54

>KOG0108|consensus

Probab=99.58  E-value=8.3e-15  Score=120.01  Aligned_cols=81  Identities=22%  Similarity=0.450  Sum_probs=78.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      +.|||||+|+.+++++|..+|+..|  .|..++++.|+.+|+.+||||++|.+.+.++.|++.|||.++.||+|+|.|+.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g--~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~   96 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVG--PVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYAS   96 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccC--ccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccc
Confidence            8999999999999999999999999  99999999999999999999999999999999999999999999999999998


Q ss_pred             CCC
Q psy8001         151 RNV  153 (172)
Q Consensus       151 ~~~  153 (172)
                      ...
T Consensus        97 ~~~   99 (435)
T KOG0108|consen   97 NRK   99 (435)
T ss_pred             ccc
Confidence            543

>smart00360 RRM RNA recognition motif

Probab=99.57  E-value=2.2e-14  Score=88.21  Aligned_cols=71  Identities=34%  Similarity=0.474  Sum_probs=66.8

Q ss_pred             EcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          75 VGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        75 V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      |+|||..+++++|+++|.++|  .+..+.+..++.++.++|||||+|.+.++|..|++.|++..+.|++|+|+
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g--~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFG--KIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhC--CEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            579999999999999999999  89999999988778899999999999999999999999999999998874

>KOG0131|consensus

Probab=99.56  E-value=4.7e-15  Score=106.55  Aligned_cols=83  Identities=19%  Similarity=0.306  Sum_probs=78.7

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      +.+...+||||||+..++++.|+++|-+.|  .+..+++.+|+.++..+||||++|.++++|+-|++.||...|.||.|+
T Consensus         5 ~rnqd~tiyvgnld~kvs~~~l~EL~iqag--pVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIr   82 (203)
T KOG0131|consen    5 ERNQDATLYVGNLDEKVSEELLYELFIQAG--PVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIR   82 (203)
T ss_pred             ccCCCceEEEecCCHHHHHHHHHHHHHhcC--ceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeE
Confidence            345567999999999999999999999999  999999999999999999999999999999999999999999999999


Q ss_pred             EeccC
Q psy8001         146 VAYPT  150 (172)
Q Consensus       146 v~~a~  150 (172)
                      |..+.
T Consensus        83 v~kas   87 (203)
T KOG0131|consen   83 VNKAS   87 (203)
T ss_pred             EEecc
Confidence            99886

>KOG0148|consensus

Probab=99.56  E-value=1.4e-14  Score=109.96  Aligned_cols=77  Identities=21%  Similarity=0.406  Sum_probs=72.9

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...+|+|||||++..++|++|++.|+.||  .|.+|++..+      +||+||.|.+.|+|..||..+|+.+|.|+.++|
T Consensus       161 sp~NtsVY~G~I~~~lte~~mr~~Fs~fG--~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNntei~G~~VkC  232 (321)
T KOG0148|consen  161 SPDNTSVYVGNIASGLTEDLMRQTFSPFG--PIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRC  232 (321)
T ss_pred             CCCCceEEeCCcCccccHHHHHHhcccCC--cceEEEEecc------cceEEEEecchhhHHHHHHHhcCceeCceEEEE
Confidence            46789999999999999999999999999  9999999876      589999999999999999999999999999999


Q ss_pred             eccCC
Q psy8001         147 AYPTR  151 (172)
Q Consensus       147 ~~a~~  151 (172)
                      .|-+.
T Consensus       233 sWGKe  237 (321)
T KOG0148|consen  233 SWGKE  237 (321)
T ss_pred             ecccc
Confidence            99885

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

Probab=99.56  E-value=2.5e-14  Score=109.63  Aligned_cols=79  Identities=33%  Similarity=0.511  Sum_probs=76.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .++|||+||++.+++++|+++|..||  .+..+.+..++.++..+|||||+|.+.+++..|++.|+|..|.|++|.|.++
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g--~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~  192 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFG--PVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKA  192 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcC--ceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecc
Confidence            58999999999999999999999999  8999999999889999999999999999999999999999999999999996


Q ss_pred             C
Q psy8001         150 T  150 (172)
Q Consensus       150 ~  150 (172)
                      .
T Consensus       193 ~  193 (306)
T COG0724         193 Q  193 (306)
T ss_pred             c
Confidence            5

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

Probab=99.56  E-value=2.4e-14  Score=119.30  Aligned_cols=81  Identities=22%  Similarity=0.287  Sum_probs=76.0

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ....+|||+|||..+++++|+++|+++|  .|..|+|+.|+.+|+++|||||+|.+.++|.+||. |+|..|.|+.|.|.
T Consensus        87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G--~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~  163 (457)
T TIGR01622        87 RDDRTVFVLQLALKARERDLYEFFSKVG--KVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQ  163 (457)
T ss_pred             cCCcEEEEeCCCCCCCHHHHHHHHHhcC--CeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEe
Confidence            3467899999999999999999999999  99999999999999999999999999999999997 89999999999998


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      ++..
T Consensus       164 ~~~~  167 (457)
T TIGR01622       164 SSQA  167 (457)
T ss_pred             ecch
Confidence            8753

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.

>KOG0111|consensus

Probab=99.55  E-value=3.1e-15  Score=110.52  Aligned_cols=84  Identities=24%  Similarity=0.326  Sum_probs=79.7

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ....+||||+|...++|.-|...|-+||  +|..|.+..|-.+++++|||||+|...++|.+||.-||+.+|.||.|+|.
T Consensus         8 ~~KrtlYVGGladeVtekvLhaAFIPFG--DI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN   85 (298)
T KOG0111|consen    8 NQKRTLYVGGLADEVTEKVLHAAFIPFG--DIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVN   85 (298)
T ss_pred             ccceeEEeccchHHHHHHHHHhcccccc--chhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEe
Confidence            3457899999999999999999999999  99999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      +|+|..
T Consensus        86 ~AkP~k   91 (298)
T KOG0111|consen   86 LAKPEK   91 (298)
T ss_pred             ecCCcc
Confidence            999844

>KOG0146|consensus

Probab=99.55  E-value=9.6e-15  Score=110.80  Aligned_cols=87  Identities=17%  Similarity=0.286  Sum_probs=82.3

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ...+++|+|||--||...++.||.+.|-.||  .|.+.++..|+.|..+|+|+||.|.+..+++.||..|||..|+-++|
T Consensus       280 reGPeGCNlFIYHLPQEFgDaEliQmF~PFG--hivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRL  357 (371)
T KOG0146|consen  280 REGPEGCNLFIYHLPQEFGDAELIQMFLPFG--HIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRL  357 (371)
T ss_pred             hcCCCcceEEEEeCchhhccHHHHHHhcccc--ceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhh
Confidence            4578899999999999999999999999999  99999999999999999999999999999999999999999999999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      +|...+++.
T Consensus       358 KVQLKRPkd  366 (371)
T KOG0146|consen  358 KVQLKRPKD  366 (371)
T ss_pred             hhhhcCccc
Confidence            999887654

>KOG0126|consensus

Probab=99.54  E-value=6.7e-16  Score=110.93  Aligned_cols=82  Identities=23%  Similarity=0.454  Sum_probs=77.0

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      .+..-|||||||+..||-+|--.|++||  .+..|.+++|+.||+++||||+.|.+.-+.-.|+.-|||..|.||.|+|.
T Consensus        33 kdsA~Iyiggl~~~LtEgDil~VFSqyG--e~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVD  110 (219)
T KOG0126|consen   33 KDSAYIYIGGLPYELTEGDILCVFSQYG--EIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVD  110 (219)
T ss_pred             ccceEEEECCCcccccCCcEEEEeeccC--ceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEee
Confidence            3556899999999999999999999999  89999999999999999999999999999999999999999999999998


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      +...
T Consensus       111 Hv~~  114 (219)
T KOG0126|consen  111 HVSN  114 (219)
T ss_pred             eccc
Confidence            7753

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

Probab=99.53  E-value=6.8e-14  Score=118.57  Aligned_cols=78  Identities=24%  Similarity=0.241  Sum_probs=71.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhc--CCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSI--GVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~--g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ..+|||+||++.+++++|+++|++|  |  .|..|+++        ++||||+|.+.++|++|++.|||..|+|+.|+|.
T Consensus       233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G--~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~  302 (578)
T TIGR01648       233 VKILYVRNLMTTTTEEIIEKSFSEFKPG--KVERVKKI--------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVT  302 (578)
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCC--ceEEEEee--------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            4689999999999999999999999  9  89988764        4699999999999999999999999999999999


Q ss_pred             ccCCCCcchh
Q psy8001         148 YPTRNVLYQF  157 (172)
Q Consensus       148 ~a~~~~~~~~  157 (172)
                      ++++....++
T Consensus       303 ~Akp~~~~~~  312 (578)
T TIGR01648       303 LAKPVDKKSY  312 (578)
T ss_pred             EccCCCcccc
Confidence            9998765544

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.

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

Probab=99.52  E-value=9.9e-14  Score=116.51  Aligned_cols=79  Identities=18%  Similarity=0.217  Sum_probs=72.8

Q ss_pred             CCCcceEEEcCCCC-CCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          67 SSSHCNLYVGNLTW-WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        67 ~~~~~~v~V~nL~~-~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ...+++|||+||++ .+++++|+++|+.||  .|..|+|+.++     +|||||+|.+.++|+.||..|||..|.|+.|+
T Consensus       272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG--~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~  344 (481)
T TIGR01649       272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYG--NVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLR  344 (481)
T ss_pred             CCCCCEEEEeCCCCCCCCHHHHHHHHHhcC--CeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEE
Confidence            34678999999998 699999999999999  99999998863     68999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.+++..
T Consensus       345 v~~s~~~  351 (481)
T TIGR01649       345 VCPSKQQ  351 (481)
T ss_pred             EEEcccc
Confidence            9998764

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).

>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=99.51  E-value=2.6e-13  Score=84.17  Aligned_cols=74  Identities=32%  Similarity=0.477  Sum_probs=68.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      +|+|+|||..+++++|+++|..+|  .+..+.+..++.+ ..+|+|||+|.+.++|..|++.+++..+.|++|.|.+
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g--~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFG--KVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcC--CEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            489999999999999999999999  8999999887744 6789999999999999999999999999999999874

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).

>KOG0144|consensus

Probab=99.51  E-value=1.4e-13  Score=110.25  Aligned_cols=83  Identities=24%  Similarity=0.445  Sum_probs=76.0

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc-eeCC--ccc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL-ELHG--RKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~-~l~g--~~l  144 (172)
                      .+..++|||-+|..|+|.||+.+|++||  .|.+|.|++||.++.++|||||.|.+.++|.+|+.+||+. .|-|  ..|
T Consensus        32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg--~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pv  109 (510)
T KOG0144|consen   32 GSAVKLFVGQIPRTASEKDLRELFEKYG--NVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPV  109 (510)
T ss_pred             chhhhheeccCCccccHHHHHHHHHHhC--ceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcce
Confidence            5567899999999999999999999999  8999999999999999999999999999999999999988 4444  689


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      .|++|...
T Consensus       110 qvk~Ad~E  117 (510)
T KOG0144|consen  110 QVKYADGE  117 (510)
T ss_pred             eecccchh
Confidence            99999853

>KOG0124|consensus

Probab=99.50  E-value=2.2e-14  Score=113.03  Aligned_cols=80  Identities=25%  Similarity=0.461  Sum_probs=76.6

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .|+||||.+.+...|+.|+..|..||  .|+++.+.+|+.|++++|||||+|.-.+.|+.|++.|||.+++||.|+|...
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFG--PIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrP  190 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFG--PIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP  190 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCC--CcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCC
Confidence            58999999999999999999999999  9999999999999999999999999999999999999999999999999855


Q ss_pred             CC
Q psy8001         150 TR  151 (172)
Q Consensus       150 ~~  151 (172)
                      ..
T Consensus       191 sN  192 (544)
T KOG0124|consen  191 SN  192 (544)
T ss_pred             CC
Confidence            43

>KOG0127|consensus

Probab=99.46  E-value=2.3e-13  Score=111.80  Aligned_cols=83  Identities=16%  Similarity=0.314  Sum_probs=76.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      .....|.|+||||.+...+|+.+|+.||  .+..|.|.+.+ .|+.+|||||.|....+|+.||+.|||.+|+||.|-|.
T Consensus       115 ~~k~rLIIRNLPf~~k~~dLk~vFs~~G--~V~Ei~IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVD  191 (678)
T KOG0127|consen  115 LPKWRLIIRNLPFKCKKPDLKNVFSNFG--KVVEIVIPRKK-DGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVD  191 (678)
T ss_pred             CccceEEeecCCcccCcHHHHHHHhhcc--eEEEEEcccCC-CCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEe
Confidence            3478999999999999999999999999  99999999776 56666999999999999999999999999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      ||-++.
T Consensus       192 WAV~Kd  197 (678)
T KOG0127|consen  192 WAVDKD  197 (678)
T ss_pred             eecccc
Confidence            998754

>KOG0131|consensus

Probab=99.43  E-value=2.5e-13  Score=97.76  Aligned_cols=86  Identities=24%  Similarity=0.300  Sum_probs=78.2

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...+.++||+||.+.++|..|.+.|+.||+ -+..-+++++..||..+||||+.|.+.+.+.+|++.|||..+++++|.|
T Consensus        93 l~vganlfvgNLd~~vDe~~L~dtFsafG~-l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv  171 (203)
T KOG0131|consen   93 LDVGANLFVGNLDPEVDEKLLYDTFSAFGV-LISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITV  171 (203)
T ss_pred             ccccccccccccCcchhHHHHHHHHHhccc-cccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEE
Confidence            345589999999999999999999999994 3555689999999999999999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      +++..+.
T Consensus       172 ~ya~k~~  178 (203)
T KOG0131|consen  172 SYAFKKD  178 (203)
T ss_pred             EEEEecC
Confidence            9998644

>KOG0114|consensus

Probab=99.43  E-value=8.4e-13  Score=86.86  Aligned_cols=79  Identities=18%  Similarity=0.239  Sum_probs=71.9

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ..+..|||.|||+.++.+++.++|.+||  .|..|+|-..+   ..+|-|||.|++..+|.+|++.|+|..++++.|.|-
T Consensus        16 evnriLyirNLp~~ITseemydlFGkyg--~IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vl   90 (124)
T KOG0114|consen   16 EVNRILYIRNLPFKITSEEMYDLFGKYG--TIRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVL   90 (124)
T ss_pred             hhheeEEEecCCccccHHHHHHHhhccc--ceEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEE
Confidence            4456899999999999999999999999  89999987654   458999999999999999999999999999999998


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      +-.+
T Consensus        91 yyq~   94 (124)
T KOG0114|consen   91 YYQP   94 (124)
T ss_pred             ecCH
Confidence            8765

>smart00361 RRM_1 RNA recognition motif

Probab=99.43  E-value=8.9e-13  Score=82.56  Aligned_cols=62  Identities=13%  Similarity=0.250  Sum_probs=55.5

Q ss_pred             HHHHHHHHH----hcCCCCeEEEE-EEecCCC--CCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          84 EADMSDAIR----SIGVPDFIDVK-FFENASN--GQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        84 ~~~l~~~f~----~~g~~~~~~~~-i~~~~~~--g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      +++|+++|.    .||  .+..+. ++.++.+  +.++|||||+|.+.++|.+|++.|||..+.|+.|+++
T Consensus         2 ~~~l~~~~~~~~~~fG--~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~   70 (70)
T smart00361        2 DEDFEREFSEEEEYFG--EVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE   70 (70)
T ss_pred             chhHHHHHHHHHHhcC--CeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence            568888888    999  899885 7777766  8899999999999999999999999999999999863

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

Probab=99.41  E-value=1.2e-12  Score=109.96  Aligned_cols=75  Identities=23%  Similarity=0.244  Sum_probs=68.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHC--CCceeCCcccEEe
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL--PTLELHGRKPMVA  147 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l--~g~~l~g~~l~v~  147 (172)
                      ...|||+|||+.+++++|+++|++||  .|..+.++.+      +|||||+|.+.++|++|++.|  ++..|.|+.|.|.
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~fG--~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~   73 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPFG--PVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFN   73 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhcC--CeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEE
Confidence            35899999999999999999999999  8999998753      579999999999999999864  7889999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      ++..+
T Consensus        74 ~s~~~   78 (481)
T TIGR01649        74 YSTSQ   78 (481)
T ss_pred             ecCCc
Confidence            99754

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).

>KOG0105|consensus

Probab=99.39  E-value=8.6e-13  Score=95.34  Aligned_cols=80  Identities=16%  Similarity=0.243  Sum_probs=70.1

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||||||..+.+.+|.++|.+||  .|..|.+-.   ......||||+|.+.-+|+.||..-+|..++|.+|+|+
T Consensus         4 r~~~~iyvGNLP~diRekeieDlFyKyg--~i~~ieLK~---r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVE   78 (241)
T KOG0105|consen    4 RNSRRIYVGNLPGDIREKEIEDLFYKYG--RIREIELKN---RPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVE   78 (241)
T ss_pred             cccceEEecCCCcchhhccHHHHHhhhc--ceEEEEecc---CCCCCCeeEEEecCccchhhhhhcccccccCcceEEEE
Confidence            3467999999999999999999999999  888877522   23346799999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      ++...
T Consensus        79 fprgg   83 (241)
T KOG0105|consen   79 FPRGG   83 (241)
T ss_pred             eccCC
Confidence            99753

>KOG0144|consensus

Probab=99.39  E-value=5.2e-13  Score=107.06  Aligned_cols=82  Identities=20%  Similarity=0.356  Sum_probs=74.9

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc-eeCC--cccE
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL-ELHG--RKPM  145 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~-~l~g--~~l~  145 (172)
                      ...+||||-|+..++|.+++.+|++||  .|+.|.|++|. .+.++|||||.|.+.+.|..||+.|||. .+.|  ..|.
T Consensus       123 ~e~KLFvg~lsK~~te~evr~iFs~fG--~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLV  199 (510)
T KOG0144|consen  123 EERKLFVGMLSKQCTENEVREIFSRFG--HIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLV  199 (510)
T ss_pred             cchhhhhhhccccccHHHHHHHHHhhC--ccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceE
Confidence            367899999999999999999999999  89999999998 7899999999999999999999999999 4444  7899


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |+||..+.
T Consensus       200 VkFADtqk  207 (510)
T KOG0144|consen  200 VKFADTQK  207 (510)
T ss_pred             EEecccCC
Confidence            99998654

>KOG0127|consensus

Probab=99.38  E-value=2.5e-12  Score=105.88  Aligned_cols=87  Identities=20%  Similarity=0.284  Sum_probs=78.6

Q ss_pred             CCCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHC-----CC-c
Q psy8001          64 QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL-----PT-L  137 (172)
Q Consensus        64 ~~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l-----~g-~  137 (172)
                      ....+.+.+|||+|||+++++++|.++|++||  .+..+.|+.++.|+.++|.|||.|.+..++..||...     .| .
T Consensus       286 ~en~~~~~tVFvRNL~fD~tEEel~~~fskFG--~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~  363 (678)
T KOG0127|consen  286 RENITEGKTVFVRNLPFDTTEEELKEHFSKFG--EVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSV  363 (678)
T ss_pred             cccccccceEEEecCCccccHHHHHHHHHhhc--cceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceE
Confidence            34566778999999999999999999999999  9999999999999999999999999999999999865     23 5


Q ss_pred             eeCCcccEEeccCCC
Q psy8001         138 ELHGRKPMVAYPTRN  152 (172)
Q Consensus       138 ~l~g~~l~v~~a~~~  152 (172)
                      .|+||.|+|..|-.+
T Consensus       364 ll~GR~Lkv~~Av~R  378 (678)
T KOG0127|consen  364 LLDGRLLKVTLAVTR  378 (678)
T ss_pred             EEeccEEeeeeccch
Confidence            789999999988753

>KOG0147|consensus

Probab=99.38  E-value=5.1e-13  Score=109.76  Aligned_cols=77  Identities=32%  Similarity=0.488  Sum_probs=73.6

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      .||||||++++++++|+.+|..||  .|..|.+..|..||.++||+|++|.+.++|..|++.|||.+|.|+.|+|..-.
T Consensus       280 rl~vgnLHfNite~~lr~ifepfg--~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~  356 (549)
T KOG0147|consen  280 RLYVGNLHFNITEDMLRGIFEPFG--KIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVT  356 (549)
T ss_pred             hhhhcccccCchHHHHhhhccCcc--cceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEee
Confidence            399999999999999999999999  99999999999999999999999999999999999999999999999987654

>PF13893 RRM_5: RNA recognition motif

Probab=99.37  E-value=2.5e-12  Score=76.91  Aligned_cols=56  Identities=25%  Similarity=0.477  Sum_probs=50.5

Q ss_pred             HHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          87 MSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        87 l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      |+++|++||  .|..+.+..++     +++|||+|.+.++|..|++.|||..+.|++|+|+||
T Consensus         1 L~~~f~~fG--~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFG--EVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS---EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcc--cEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            678999999  99999886643     689999999999999999999999999999999986

(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 ....

>KOG4849|consensus

Probab=99.35  E-value=2.5e-12  Score=100.93  Aligned_cols=160  Identities=31%  Similarity=0.451  Sum_probs=121.4

Q ss_pred             cccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCCCCCCCCCC-CCCCCCCCCCcceEEEcCC
Q psy8001           3 LYDDAILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFP---EHTGRSPARYRHHRYS-HHHSQATSSSHCNLYVGNL   78 (172)
Q Consensus         3 ~~~d~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~v~V~nL   78 (172)
                      ||.|+-.-+.|++++.....+++.++..++ +++...++..   ...+++......+... ...........+++|||||
T Consensus        10 l~~~~~q~~~~~~E~~~~D~~eL~ee~I~~-~~~~~~~~~~~e~~~~~P~~~~~~~~~~~~~~~~~s~~Grk~~~YvGNL   88 (498)
T KOG4849|consen   10 LGDGNEQHDGPIDENALLDGKELKEEDIDD-YDEAIAPTNSTESAKVSPTITTVTAPTAIGAKPATSSEGRKYCCYVGNL   88 (498)
T ss_pred             hcCCcccccCchhhhccccchhhhhcccCc-hhhcCCCCCccchhhcCCCcccccccccccCCccccccCceEEEEecce
Confidence            677788888899999988888888765554 5555423321   1122222222222221 1223344567789999999


Q ss_pred             CCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccCCCCcchhh
Q psy8001          79 TWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFE  158 (172)
Q Consensus        79 ~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~~~~~~~~~  158 (172)
                      -|++|+++|.+.+...|+..+..+++..++.+|++||||+|...+..+.++.++.|--..|+|+.-.|--.+..+.++|+
T Consensus        89 ~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~NK~~~ak~E  168 (498)
T KOG4849|consen   89 LWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSYNKTNQAKLE  168 (498)
T ss_pred             eEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeeccchhhHHHHH
Confidence            99999999999999999657888999999999999999999999999999999999999999998888777777888887


Q ss_pred             hcCcc
Q psy8001         159 AQNPL  163 (172)
Q Consensus       159 ~~~~~  163 (172)
                      ...++
T Consensus       169 ~~~~K  173 (498)
T KOG4849|consen  169 DAQAK  173 (498)
T ss_pred             HHHhh
Confidence            66555

>KOG4661|consensus

Probab=99.34  E-value=1.2e-11  Score=102.47  Aligned_cols=86  Identities=24%  Similarity=0.309  Sum_probs=79.2

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...+.+|||++|...+...+|+.+|++||  .|...+|+.+-.+...++|+||++.+.++|.+||+.||.++|+|+.|.|
T Consensus       402 s~~gRNlWVSGLSstTRAtDLKnlFSKyG--KVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISV  479 (940)
T KOG4661|consen  402 STLGRNLWVSGLSSTTRATDLKNLFSKYG--KVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISV  479 (940)
T ss_pred             cccccceeeeccccchhhhHHHHHHHHhc--ceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeee
Confidence            45578999999999999999999999999  9999999998777778899999999999999999999999999999999


Q ss_pred             eccCCCCc
Q psy8001         147 AYPTRNVL  154 (172)
Q Consensus       147 ~~a~~~~~  154 (172)
                      +.++..+.
T Consensus       480 EkaKNEp~  487 (940)
T KOG4661|consen  480 EKAKNEPG  487 (940)
T ss_pred             eecccCcc
Confidence            99986443

>KOG0109|consensus

Probab=99.34  E-value=1.9e-12  Score=99.36  Aligned_cols=73  Identities=19%  Similarity=0.339  Sum_probs=68.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      ..|||||||..+++.+|+.+|++||  +|.+|.|+.+        ||||..++...++.||+-|||..|+|..|+|+-++
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~yg--kVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSk   72 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYG--KVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASK   72 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhC--ceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecc
Confidence            4799999999999999999999999  9999999764        99999999999999999999999999999999998


Q ss_pred             CCC
Q psy8001         151 RNV  153 (172)
Q Consensus       151 ~~~  153 (172)
                      .++
T Consensus        73 sKs   75 (346)
T KOG0109|consen   73 SKS   75 (346)
T ss_pred             ccC
Confidence            763

>KOG0117|consensus

Probab=99.33  E-value=3.2e-12  Score=102.92  Aligned_cols=74  Identities=24%  Similarity=0.202  Sum_probs=69.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      ..|||.||+..+|++.|+++|.+||  .+.+|+.++|        ||||.|.+.++|.+|++.+||..|+|..|.|.+||
T Consensus       260 KvLYVRNL~~~tTeE~lk~~F~~~G--~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAK  329 (506)
T KOG0117|consen  260 KVLYVRNLMESTTEETLKKLFNEFG--KVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAK  329 (506)
T ss_pred             eeeeeeccchhhhHHHHHHHHHhcc--ceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEEecC
Confidence            4699999999999999999999999  9999988755        99999999999999999999999999999999999


Q ss_pred             CCCc
Q psy8001         151 RNVL  154 (172)
Q Consensus       151 ~~~~  154 (172)
                      +...
T Consensus       330 P~~k  333 (506)
T KOG0117|consen  330 PVDK  333 (506)
T ss_pred             Chhh
Confidence            8643

>KOG4208|consensus

Probab=99.31  E-value=8.6e-12  Score=91.47  Aligned_cols=83  Identities=19%  Similarity=0.246  Sum_probs=75.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhc-CCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSI-GVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~-g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....-+||..+|....+.++..+|.++ |  .+..+++-+++.||.++|||||+|.+.+.|+.|-+.||+..|.|+.|.|
T Consensus        47 ~~~g~~~~~~~p~g~~e~~~~~~~~q~~g--~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c  124 (214)
T KOG4208|consen   47 EIEGVVYVDHIPHGFFETEILNYFRQFGG--TVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLEC  124 (214)
T ss_pred             CCccceeecccccchhHHHHhhhhhhcCC--eeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeee
Confidence            344579999999999999999999988 5  6778888899999999999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .+-.+.
T Consensus       125 ~vmppe  130 (214)
T KOG4208|consen  125 HVMPPE  130 (214)
T ss_pred             EEeCch
Confidence            887764

>KOG0415|consensus

Probab=99.30  E-value=5.2e-12  Score=99.32  Aligned_cols=83  Identities=16%  Similarity=0.282  Sum_probs=79.0

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      .++...|||..|++.++.++|.-+|+.||  .|.+|.|++|+.||.+..||||+|.+.+++++|...|++..|+.++|+|
T Consensus       236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG--~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHV  313 (479)
T KOG0415|consen  236 KPPENVLFVCKLNPVTTDEDLEIIFSRFG--KIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHV  313 (479)
T ss_pred             CCCcceEEEEecCCcccccchhhHHhhcc--cceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEe
Confidence            45567899999999999999999999999  9999999999999999999999999999999999999999999999999


Q ss_pred             eccCC
Q psy8001         147 AYPTR  151 (172)
Q Consensus       147 ~~a~~  151 (172)
                      .++..
T Consensus       314 DFSQS  318 (479)
T KOG0415|consen  314 DFSQS  318 (479)
T ss_pred             ehhhh
Confidence            99875

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

Probab=99.25  E-value=7.9e-11  Score=99.45  Aligned_cols=77  Identities=17%  Similarity=0.224  Sum_probs=61.9

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCC----------CCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCC
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGV----------PDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPT  136 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~----------~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g  136 (172)
                      .....+|||||||+.+++++|+++|..++.          ..|..+.      .+..+|||||+|.+.++|..||. |+|
T Consensus       172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~------~~~~kg~afVeF~~~e~A~~Al~-l~g  244 (509)
T TIGR01642       172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVN------INKEKNFAFLEFRTVEEATFAMA-LDS  244 (509)
T ss_pred             CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEE------ECCCCCEEEEEeCCHHHHhhhhc-CCC
Confidence            445678999999999999999999997620          0223333      24467999999999999999995 999


Q ss_pred             ceeCCcccEEeccC
Q psy8001         137 LELHGRKPMVAYPT  150 (172)
Q Consensus       137 ~~l~g~~l~v~~a~  150 (172)
                      ..|.|+.|+|....
T Consensus       245 ~~~~g~~l~v~r~~  258 (509)
T TIGR01642       245 IIYSNVFLKIRRPH  258 (509)
T ss_pred             eEeeCceeEecCcc
Confidence            99999999997654

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

>KOG4206|consensus

Probab=99.24  E-value=5.1e-11  Score=88.61  Aligned_cols=77  Identities=18%  Similarity=0.362  Sum_probs=70.8

Q ss_pred             ceEEEcCCCCCCCHHHHHH----HHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          71 CNLYVGNLTWWTTEADMSD----AIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~----~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      .+|||.||+..+..++|+.    +|++||  .+..|....   +.+.+|-|||.|.+.+.|-.|++.|+|..+.|+.+++
T Consensus        10 ~TlYInnLnekI~~~elkrsL~~LFsqfG--~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mri   84 (221)
T KOG4206|consen   10 GTLYINNLNEKIKKDELKRSLYLLFSQFG--KILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRI   84 (221)
T ss_pred             ceEeehhccccccHHHHHHHHHHHHHhhC--CeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhhe
Confidence            3999999999999999988    999999  888877654   7789999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .||+..
T Consensus        85 qyA~s~   90 (221)
T KOG4206|consen   85 QYAKSD   90 (221)
T ss_pred             ecccCc
Confidence            999864

>KOG4212|consensus

Probab=99.23  E-value=3.8e-11  Score=96.80  Aligned_cols=84  Identities=20%  Similarity=0.394  Sum_probs=76.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHH-hcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIR-SIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~-~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..+||.|||+++.+.+|+++|. +.|  .|..|.++.|. +|+.+|+|.|+|++++.+++|++.||-+.+.||.|.|+..
T Consensus        45 R~vfItNIpyd~rWqdLKdLvrekvG--ev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd  121 (608)
T KOG4212|consen   45 RSVFITNIPYDYRWQDLKDLVREKVG--EVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKED  121 (608)
T ss_pred             ceEEEecCcchhhhHhHHHHHHHhcC--ceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEecc
Confidence            3599999999999999999997 678  89999999998 9999999999999999999999999999999999999988


Q ss_pred             CCCCcchh
Q psy8001         150 TRNVLYQF  157 (172)
Q Consensus       150 ~~~~~~~~  157 (172)
                      ......+.
T Consensus       122 ~d~q~~~~  129 (608)
T KOG4212|consen  122 HDEQRDQY  129 (608)
T ss_pred             Cchhhhhh
Confidence            65444443

>KOG0123|consensus

Probab=99.19  E-value=8.1e-11  Score=95.54  Aligned_cols=74  Identities=30%  Similarity=0.466  Sum_probs=70.5

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccCC
Q psy8001          73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTR  151 (172)
Q Consensus        73 v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~~  151 (172)
                      |||-||+..++..+|.++|+.||  .|.+|++..+. +| ++|| ||+|.+.++|.+||..|||..+.|++|.|....+
T Consensus        79 ~~i~nl~~~~~~~~~~d~f~~~g--~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~  152 (369)
T KOG0123|consen   79 VFIKNLDESIDNKSLYDTFSEFG--NILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFER  152 (369)
T ss_pred             eeecCCCcccCcHHHHHHHHhhc--CeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccc
Confidence            99999999999999999999999  99999999987 55 8999 9999999999999999999999999999987765

>KOG0116|consensus

Probab=99.17  E-value=2.6e-10  Score=93.34  Aligned_cols=81  Identities=20%  Similarity=0.268  Sum_probs=69.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ...|||.|||.+++.++|+++|..||  .|....|......++..+||||+|.+.++++.||++ +-..|++++|.|+..
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~Fk~FG--~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek  364 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVFKQFG--PIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEK  364 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHHhhcc--cccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEec
Confidence            44599999999999999999999999  888887766543455558999999999999999996 678999999999988


Q ss_pred             CCCC
Q psy8001         150 TRNV  153 (172)
Q Consensus       150 ~~~~  153 (172)
                      +...
T Consensus       365 ~~~~  368 (419)
T KOG0116|consen  365 RPGF  368 (419)
T ss_pred             cccc
Confidence            8644

>KOG0110|consensus

Probab=99.13  E-value=5e-11  Score=100.74  Aligned_cols=83  Identities=16%  Similarity=0.318  Sum_probs=76.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ++.|+|.|||+.++-.+++.+|..||  .+..|+|......+.++|||||+|-+..+|..|+..|.++.|.||+|.++||
T Consensus       613 ~tKIlVRNipFeAt~rEVr~LF~aFG--qlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA  690 (725)
T KOG0110|consen  613 GTKILVRNIPFEATKREVRKLFTAFG--QLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWA  690 (725)
T ss_pred             cceeeeeccchHHHHHHHHHHHhccc--ceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehh
Confidence            67899999999999999999999999  8999998876556778999999999999999999999999999999999999


Q ss_pred             CCCCc
Q psy8001         150 TRNVL  154 (172)
Q Consensus       150 ~~~~~  154 (172)
                      +..+.
T Consensus       691 ~~d~~  695 (725)
T KOG0110|consen  691 KSDNT  695 (725)
T ss_pred             ccchH
Confidence            97554

>KOG0153|consensus

Probab=99.13  E-value=2.3e-10  Score=89.80  Aligned_cols=83  Identities=20%  Similarity=0.321  Sum_probs=70.9

Q ss_pred             CCCCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHH-HCCCceeCC
Q psy8001          63 SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME-RLPTLELHG  141 (172)
Q Consensus        63 ~~~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~-~l~g~~l~g  141 (172)
                      .++.+..-.+|||++|...++|.+|+++|.+||  .+.++.++..      +++|||+|.+.++|+.|.+ .+|-..|+|
T Consensus       221 epPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyG--eirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G  292 (377)
T KOG0153|consen  221 EPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYG--EIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVING  292 (377)
T ss_pred             CCCcccceeEEEecccccchhHHHHHHHHhhcC--CeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecc
Confidence            345566677999999999999999999999999  8999988653      4699999999999988876 566668899


Q ss_pred             cccEEeccCCCC
Q psy8001         142 RKPMVAYPTRNV  153 (172)
Q Consensus       142 ~~l~v~~a~~~~  153 (172)
                      ++|+|.|.++..
T Consensus       293 ~Rl~i~Wg~~~~  304 (377)
T KOG0153|consen  293 FRLKIKWGRPKQ  304 (377)
T ss_pred             eEEEEEeCCCcc
Confidence            999999998733

>KOG0123|consensus

Probab=99.12  E-value=2e-10  Score=93.25  Aligned_cols=75  Identities=21%  Similarity=0.340  Sum_probs=70.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      ..||||   +.+++..|.++|+..|  .+.++++++|- |  +.|||||.|.+.++|++||+.||...+.|+.|++.|+.
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~--~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~   73 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAG--PVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQ   73 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccC--CceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhc
Confidence            468999   8999999999999999  99999999998 6  99999999999999999999999999999999999997


Q ss_pred             CCC
Q psy8001         151 RNV  153 (172)
Q Consensus       151 ~~~  153 (172)
                      +..
T Consensus        74 rd~   76 (369)
T KOG0123|consen   74 RDP   76 (369)
T ss_pred             cCC
Confidence            643

>KOG4205|consensus

Probab=99.11  E-value=7.4e-11  Score=93.21  Aligned_cols=82  Identities=27%  Similarity=0.475  Sum_probs=75.2

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++||||+|+|.++++.|+..|.+||  .+..+.+++|+.+++++||+||+|.+.+...++|. ..-+.|+|+.|.+..
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~G--ev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~   81 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFG--EVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKR   81 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccC--ceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCcccccee
Confidence            568999999999999999999999999  89999999999999999999999999999988887 466789999999998


Q ss_pred             cCCCC
Q psy8001         149 PTRNV  153 (172)
Q Consensus       149 a~~~~  153 (172)
                      |.++-
T Consensus        82 av~r~   86 (311)
T KOG4205|consen   82 AVSRE   86 (311)
T ss_pred             ccCcc
Confidence            87643

>KOG4212|consensus

Probab=99.11  E-value=1.5e-10  Score=93.41  Aligned_cols=76  Identities=29%  Similarity=0.396  Sum_probs=68.6

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....|+|||.|||+.+|+..|++-|..||  .+....|+.   +|+++|  .|.|.++++|++|+..|+|..|.||.|.|
T Consensus       533 arKa~qIiirNlP~dfTWqmlrDKfre~G--~v~yadime---~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V  605 (608)
T KOG4212|consen  533 ARKACQIIIRNLPFDFTWQMLRDKFREIG--HVLYADIME---NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKV  605 (608)
T ss_pred             cccccEEEEecCCccccHHHHHHHHHhcc--ceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhccCcccCceeee
Confidence            44568999999999999999999999999  888888844   577777  89999999999999999999999999999


Q ss_pred             ecc
Q psy8001         147 AYP  149 (172)
Q Consensus       147 ~~a  149 (172)
                      .+.
T Consensus       606 ~y~  608 (608)
T KOG4212|consen  606 TYF  608 (608)
T ss_pred             eeC
Confidence            863

>KOG1548|consensus

Probab=99.08  E-value=1.1e-09  Score=85.90  Aligned_cols=87  Identities=22%  Similarity=0.298  Sum_probs=76.4

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeE--------EEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCce
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFI--------DVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLE  138 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~--------~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~  138 (172)
                      ...+..|||+|||..+|.+++.++|++||  -|.        .|++.++. .|..+|-|++.|...++.+.|++.|++..
T Consensus       131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcG--iI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~  207 (382)
T KOG1548|consen  131 PKVNTSVYVSGLPLDITVDEFAEVMSKCG--IIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDE  207 (382)
T ss_pred             cccCceEEecCCCCcccHHHHHHHHHhcc--eEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCccc
Confidence            34567899999999999999999999999  342        48898888 59999999999999999999999999999


Q ss_pred             eCCcccEEeccCCCCcch
Q psy8001         139 LHGRKPMVAYPTRNVLYQ  156 (172)
Q Consensus       139 l~g~~l~v~~a~~~~~~~  156 (172)
                      |.|++|+|+.|+-+....
T Consensus       208 ~rg~~~rVerAkfq~Kge  225 (382)
T KOG1548|consen  208 LRGKKLRVERAKFQMKGE  225 (382)
T ss_pred             ccCcEEEEehhhhhhccC
Confidence            999999999998544333

>KOG0146|consensus

Probab=99.08  E-value=2.6e-10  Score=86.90  Aligned_cols=81  Identities=20%  Similarity=0.361  Sum_probs=72.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCce-eCC--ccc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLE-LHG--RKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~-l~g--~~l  144 (172)
                      .+..+||||.|...-.|+|++.+|..||  .+.++.+.+.. .|.+||++||.|.+..+|+.||..|||.. +-|  ..|
T Consensus        17 ~~drklfvgml~kqq~e~dvrrlf~pfG--~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSL   93 (371)
T KOG0146|consen   17 GDDRKLFVGMLNKQQSEDDVRRLFQPFG--NIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSL   93 (371)
T ss_pred             ccchhhhhhhhcccccHHHHHHHhcccC--CcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccce
Confidence            3567899999999999999999999999  89999999987 78899999999999999999999999984 444  578


Q ss_pred             EEeccCC
Q psy8001         145 MVAYPTR  151 (172)
Q Consensus       145 ~v~~a~~  151 (172)
                      .|+++.-
T Consensus        94 VVK~ADT  100 (371)
T KOG0146|consen   94 VVKFADT  100 (371)
T ss_pred             EEEeccc
Confidence            9998864

>KOG0226|consensus

Probab=99.07  E-value=1.6e-10  Score=87.32  Aligned_cols=83  Identities=14%  Similarity=0.238  Sum_probs=77.2

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++||+|.|.-.++++-|-..|.+|-  .....++++|+.+|+++||+||.|.+..++-+|+..|+|.-++.+.|++
T Consensus       187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfp--sf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpikl  264 (290)
T KOG0226|consen  187 DEDDFRIFCGDLGNEVNDDVLARAFKKFP--SFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKL  264 (290)
T ss_pred             ccccceeecccccccccHHHHHHHHHhcc--chhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHh
Confidence            35678999999999999999999999999  8999999999999999999999999999999999999999999999988


Q ss_pred             eccCC
Q psy8001         147 AYPTR  151 (172)
Q Consensus       147 ~~a~~  151 (172)
                      +.+.-
T Consensus       265 RkS~w  269 (290)
T KOG0226|consen  265 RKSEW  269 (290)
T ss_pred             hhhhH
Confidence            76543

>KOG0109|consensus

Probab=99.06  E-value=2.2e-10  Score=88.11  Aligned_cols=76  Identities=20%  Similarity=0.319  Sum_probs=69.4

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|+||||.+.++..||+..|.+||  .+.+++|+.        +|+||.|.-.++|..||+.|++.+++|++|+|
T Consensus        75 sk~stkl~vgNis~tctn~ElRa~fe~yg--pviecdivk--------dy~fvh~d~~eda~~air~l~~~~~~gk~m~v  144 (346)
T KOG0109|consen   75 SKASTKLHVGNISPTCTNQELRAKFEKYG--PVIECDIVK--------DYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHV  144 (346)
T ss_pred             CCCccccccCCCCccccCHHHhhhhcccC--Cceeeeeec--------ceeEEEEeeccchHHHHhcccccccccceeee
Confidence            34567899999999999999999999999  899999865        49999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      ..+..+
T Consensus       145 q~stsr  150 (346)
T KOG0109|consen  145 QLSTSR  150 (346)
T ss_pred             eeeccc
Confidence            988753

>KOG0110|consensus

Probab=99.04  E-value=6.8e-10  Score=93.99  Aligned_cols=77  Identities=25%  Similarity=0.340  Sum_probs=68.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCC---CcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNG---QSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g---~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      .|||.||++.++.++|...|...|  .+..+.|...+...   .+.|||||+|.+.++|..|++.|+|+.|+|+.|.|++
T Consensus       517 ~lfvkNlnf~Tt~e~l~~~F~k~G--~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~  594 (725)
T KOG0110|consen  517 KLFVKNLNFDTTLEDLEDLFSKQG--TVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKI  594 (725)
T ss_pred             hhhhhcCCcccchhHHHHHHHhcC--eEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEe
Confidence            399999999999999999999999  88888777655221   2459999999999999999999999999999999999


Q ss_pred             cC
Q psy8001         149 PT  150 (172)
Q Consensus       149 a~  150 (172)
                      +.
T Consensus       595 S~  596 (725)
T KOG0110|consen  595 SE  596 (725)
T ss_pred             cc
Confidence            97

>KOG0124|consensus

Probab=99.03  E-value=7.6e-10  Score=87.68  Aligned_cols=81  Identities=15%  Similarity=0.255  Sum_probs=76.1

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      .-++|||..++++.+|++|+..|..||  .|.+|.+-++...+.++||+|++|.+..+...||..||=..|+|..|+|-.
T Consensus       209 ~fnRiYVaSvHpDLSe~DiKSVFEAFG--~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk  286 (544)
T KOG0124|consen  209 KFNRIYVASVHPDLSETDIKSVFEAFG--EIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGK  286 (544)
T ss_pred             hhheEEeeecCCCccHHHHHHHHHhhc--ceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccc
Confidence            346899999999999999999999999  999999999998888999999999999999999999999999999999987


Q ss_pred             cCC
Q psy8001         149 PTR  151 (172)
Q Consensus       149 a~~  151 (172)
                      +-.
T Consensus       287 ~vT  289 (544)
T KOG0124|consen  287 CVT  289 (544)
T ss_pred             ccC
Confidence            764

>KOG0533|consensus

Probab=99.03  E-value=1.4e-09  Score=83.05  Aligned_cols=83  Identities=17%  Similarity=0.308  Sum_probs=75.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      .....|+|.||++.+.+++|+++|..||  .+..+.+.+++ +|.+.|.|-|.|...++|++|++.|||..++|+.|++.
T Consensus        81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~--~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~  157 (243)
T KOG0533|consen   81 TRSTKVNVSNLPYGVIDADLKELFAEFG--ELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIE  157 (243)
T ss_pred             CCcceeeeecCCcCcchHHHHHHHHHhc--cceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeE
Confidence            3347899999999999999999999999  78888888888 89999999999999999999999999999999999988


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      .....+
T Consensus       158 ~i~~~~  163 (243)
T KOG0533|consen  158 IISSPS  163 (243)
T ss_pred             EecCcc
Confidence            776544

>KOG0132|consensus

Probab=99.01  E-value=8e-10  Score=94.39  Aligned_cols=74  Identities=14%  Similarity=0.346  Sum_probs=69.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .++||||.|+..+++.+|.++|..||  .|.+|.++-      ++|||||.+....+|++|+..|+...+.++.|+|.|+
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefG--eiqSi~li~------~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa  492 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFG--EIQSIILIP------PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWA  492 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcc--cceeEeecc------CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeee
Confidence            36899999999999999999999999  899998765      4689999999999999999999999999999999999


Q ss_pred             CC
Q psy8001         150 TR  151 (172)
Q Consensus       150 ~~  151 (172)
                      ..
T Consensus       493 ~g  494 (894)
T KOG0132|consen  493 VG  494 (894)
T ss_pred             cc
Confidence            75

>KOG4209|consensus

Probab=98.94  E-value=1.2e-09  Score=83.41  Aligned_cols=81  Identities=22%  Similarity=0.275  Sum_probs=75.2

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      .+...+||||+.+.++.+++..+|..||  .+..+.|..|+.+|..+||+||+|.+.+.++.++. |+|..|.|+.+.|.
T Consensus        99 ~d~~sv~v~nvd~~~t~~~~e~hf~~Cg--~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt  175 (231)
T KOG4209|consen   99 VDAPSVWVGNVDFLVTLTKIELHFESCG--GINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVT  175 (231)
T ss_pred             cCCceEEEeccccccccchhhheeeccC--CccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceee
Confidence            3445899999999999999999999999  89999999999999999999999999999999999 99999999999998


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      +.+-
T Consensus       176 ~~r~  179 (231)
T KOG4209|consen  176 LKRT  179 (231)
T ss_pred             eeee
Confidence            8763

>KOG4205|consensus

Probab=98.90  E-value=2.1e-09  Score=85.04  Aligned_cols=86  Identities=27%  Similarity=0.343  Sum_probs=78.6

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ....||||+|+..+++.+++++|.++|  .+..+-++.|..+.+.+||+||.|.+.+++++++. ..-+.|.|+.+.|..
T Consensus        96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g--~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkr  172 (311)
T KOG4205|consen   96 RTKKIFVGGLPPDTTEEDFKDYFEQFG--KVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKR  172 (311)
T ss_pred             ceeEEEecCcCCCCchHHHhhhhhccc--eeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEee
Confidence            456899999999999999999999999  89999999999999999999999999999999987 588899999999999


Q ss_pred             cCCCCcchh
Q psy8001         149 PTRNVLYQF  157 (172)
Q Consensus       149 a~~~~~~~~  157 (172)
                      |-++...+.
T Consensus       173 A~pk~~~~~  181 (311)
T KOG4205|consen  173 AIPKEVMQS  181 (311)
T ss_pred             ccchhhccc
Confidence            988655544

>KOG1457|consensus

Probab=98.87  E-value=5.8e-08  Score=72.47  Aligned_cols=83  Identities=13%  Similarity=0.136  Sum_probs=66.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEe-cCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC---Ccc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFE-NASNGQSKGFCTVTLGSEESMSLVMERLPTLELH---GRK  143 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~-~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~---g~~  143 (172)
                      +.-.+|||++||.++...+|..+|..|.  .-+.+.+-+ ++....++-+||++|.+..+|.+|+..|||..++   +..
T Consensus        32 ~~VRTLFVSGLP~DvKpREiynLFR~f~--GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~st  109 (284)
T KOG1457|consen   32 GAVRTLFVSGLPNDVKPREIYNLFRRFH--GYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGST  109 (284)
T ss_pred             cccceeeeccCCcccCHHHHHHHhccCC--CccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCce
Confidence            3456999999999999999999999886  555554433 2222234579999999999999999999999887   578


Q ss_pred             cEEeccCCC
Q psy8001         144 PMVAYPTRN  152 (172)
Q Consensus       144 l~v~~a~~~  152 (172)
                      |++++|+..
T Consensus       110 LhiElAKSN  118 (284)
T KOG1457|consen  110 LHIELAKSN  118 (284)
T ss_pred             eEeeehhcC
Confidence            999999864

>KOG0151|consensus

Probab=98.81  E-value=2.5e-08  Score=84.76  Aligned_cols=83  Identities=16%  Similarity=0.191  Sum_probs=73.8

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCC---CCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASN---GQSKGFCTVTLGSEESMSLVMERLPTLELHGRK  143 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~---g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~  143 (172)
                      .+.+++|||+||++.++++.|...|..||  .+..++|++-+..   ...+.++||.|-+..++++|++.|+|..+.++.
T Consensus       171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfg--PlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e  248 (877)
T KOG0151|consen  171 DPQTTNLYVGNLNPSVDENFLLRTFGRFG--PLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYE  248 (877)
T ss_pred             CCcccceeeecCCccccHHHHHHHhcccC--cccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeee
Confidence            45578899999999999999999999999  8999999885522   234569999999999999999999999999999


Q ss_pred             cEEeccCC
Q psy8001         144 PMVAYPTR  151 (172)
Q Consensus       144 l~v~~a~~  151 (172)
                      +++-|.+.
T Consensus       249 ~K~gWgk~  256 (877)
T KOG0151|consen  249 MKLGWGKA  256 (877)
T ss_pred             eeeccccc
Confidence            99999975

>KOG0106|consensus

Probab=98.80  E-value=6.3e-09  Score=77.94  Aligned_cols=72  Identities=21%  Similarity=0.355  Sum_probs=65.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      ..||||+|++.+.+.+|..+|..||  .+..+.+        ..||+||+|.+..+|+.|+..||+..|+|-++.|++++
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg--~~~d~~m--------k~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r   71 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYG--KIPDADM--------KNGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHAR   71 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhcc--cccccee--------ecccceeccCchhhhhcccchhcCceecceeeeeeccc
Confidence            4699999999999999999999999  7777765        35799999999999999999999999999889999998


Q ss_pred             CC
Q psy8001         151 RN  152 (172)
Q Consensus       151 ~~  152 (172)
                      ..
T Consensus        72 ~~   73 (216)
T KOG0106|consen   72 GK   73 (216)
T ss_pred             cc
Confidence            53

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

Probab=98.80  E-value=6.2e-08  Score=64.06  Aligned_cols=80  Identities=10%  Similarity=0.078  Sum_probs=68.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhc--CCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC----Ccc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSI--GVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH----GRK  143 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~--g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~----g~~  143 (172)
                      +++|.|.|+|-..+.++|.+.+...  |  ....+.+..|-.++-+.|||||.|.+.+.+..-.+.++|..+.    .+.
T Consensus         1 RTTvMirNIPn~~t~~~L~~~l~~~~~g--~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kv   78 (97)
T PF04059_consen    1 RTTVMIRNIPNKYTQEMLIQILDEHFKG--KYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKV   78 (97)
T ss_pred             CeeEEEecCCCCCCHHHHHHHHHHhccC--cceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcE
Confidence            3689999999999999999998753  4  5677888888888889999999999999999999999999775    345


Q ss_pred             cEEeccCC
Q psy8001         144 PMVAYPTR  151 (172)
Q Consensus       144 l~v~~a~~  151 (172)
                      ..|.+|+-
T Consensus        79 c~i~yAri   86 (97)
T PF04059_consen   79 CEISYARI   86 (97)
T ss_pred             EEEehhHh
Confidence            67777753

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

>KOG4211|consensus

Probab=98.77  E-value=3.6e-08  Score=80.73  Aligned_cols=81  Identities=20%  Similarity=0.253  Sum_probs=70.0

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ......-|-+.+|||++|++||+++|+.++   |..+.+.+.  +|+..|-|||+|.+.++++.|++ .+...+..|-|.
T Consensus         6 e~~~~~~vr~rGLPwsat~~ei~~Ff~~~~---I~~~~~~r~--~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIE   79 (510)
T KOG4211|consen    6 EGSTAFEVRLRGLPWSATEKEILDFFSNCG---IENLEIPRR--NGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIE   79 (510)
T ss_pred             CCCcceEEEecCCCccccHHHHHHHHhcCc---eeEEEEecc--CCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEE
Confidence            344556788999999999999999999999   677655544  89999999999999999999999 488899999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |..+...
T Consensus        80 Vf~~~~~   86 (510)
T KOG4211|consen   80 VFTAGGA   86 (510)
T ss_pred             EEccCCc
Confidence            9988654

>KOG4454|consensus

Probab=98.74  E-value=6.7e-09  Score=77.14  Aligned_cols=85  Identities=18%  Similarity=0.116  Sum_probs=74.5

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ...+|||+|+...++|+-|.++|-+-|  .|.++.|..++ .++.+ ||||.|.++.+..-|++.+||..+.++.+.+.+
T Consensus         8 ~drtl~v~n~~~~v~eelL~ElfiqaG--PV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~   83 (267)
T KOG4454|consen    8 MDRTLLVQNMYSGVSEELLSELFIQAG--PVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTL   83 (267)
T ss_pred             hhhHHHHHhhhhhhhHHHHHHHhhccC--ceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhccc
Confidence            346899999999999999999999999  89999988777 56666 999999999999999999999999999999987


Q ss_pred             cCCCCcchh
Q psy8001         149 PTRNVLYQF  157 (172)
Q Consensus       149 a~~~~~~~~  157 (172)
                      -...+..+.
T Consensus        84 r~G~shapl   92 (267)
T KOG4454|consen   84 RCGNSHAPL   92 (267)
T ss_pred             ccCCCcchh
Confidence            766544443

>KOG4660|consensus

Probab=98.72  E-value=1.4e-08  Score=84.20  Aligned_cols=72  Identities=14%  Similarity=0.197  Sum_probs=65.2

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....+|+|-|||..+++++|+.+|+.||  .|..|+.     +...+|.+||+|.+.-+|++|++.|++.+|.|+.|+
T Consensus        72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yG--eir~ir~-----t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYG--EIREIRE-----TPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             cCccceEEEEecCCcCCHHHHHHHHHhhc--chhhhhc-----ccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            45567999999999999999999999999  8888655     445689999999999999999999999999999988

>KOG0120|consensus

Probab=98.56  E-value=7.4e-08  Score=80.21  Aligned_cols=84  Identities=20%  Similarity=0.371  Sum_probs=78.3

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ......+||++||...++..+++++..||  .+....++.|..+|.++||||.+|.+..-...|+..|||..+++++|.|
T Consensus       286 ~~~~~ki~v~~lp~~l~~~q~~Ell~~fg--~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvv  363 (500)
T KOG0120|consen  286 PDSPNKIFVGGLPLYLTEDQVKELLDSFG--PLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVV  363 (500)
T ss_pred             ccccchhhhccCcCccCHHHHHHHHHhcc--cchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEe
Confidence            34567899999999999999999999999  9999999999989999999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      ..|...
T Consensus       364 q~A~~g  369 (500)
T KOG0120|consen  364 QRAIVG  369 (500)
T ss_pred             ehhhcc
Confidence            988753

>KOG1190|consensus

Probab=98.54  E-value=4.7e-07  Score=72.91  Aligned_cols=79  Identities=24%  Similarity=0.244  Sum_probs=71.3

Q ss_pred             cceEEEcCCC-CCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          70 HCNLYVGNLT-WWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        70 ~~~v~V~nL~-~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ++.|-|.||. ..+|.+-|..+|+-||  +|.+|+|++++     +--|+|.+.+...|+.|+..|+|..|.|++|+|.+
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYG--dVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~  369 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYG--DVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTL  369 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhc--ceEEEEeeecC-----CcceeeeecchhHHHHHHHHhhcceecCceEEEee
Confidence            6788999987 5789999999999999  99999999975     35799999999999999999999999999999999


Q ss_pred             cCCCCcc
Q psy8001         149 PTRNVLY  155 (172)
Q Consensus       149 a~~~~~~  155 (172)
                      ++..+..
T Consensus       370 SKH~~vq  376 (492)
T KOG1190|consen  370 SKHTNVQ  376 (492)
T ss_pred             ccCcccc
Confidence            9975543

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

Probab=98.46  E-value=1.3e-06  Score=55.73  Aligned_cols=69  Identities=20%  Similarity=0.279  Sum_probs=46.6

Q ss_pred             ceEEEcCCCCCCCHHHHH----HHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          71 CNLYVGNLTWWTTEADMS----DAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~----~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      .-|+|.|||...+...++    +++.-+|= .+..|          ..+-|+|-|.+.+.|++|.+.|+|..+.|++|.|
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGG-kVl~v----------~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v   71 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGG-KVLSV----------SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISV   71 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT---EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EE
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCC-EEEEE----------eCCEEEEEeCCHHHHHHHHHhhcccccccceEEE
Confidence            368999999998877655    55556661 33333          2468999999999999999999999999999999


Q ss_pred             eccC
Q psy8001         147 AYPT  150 (172)
Q Consensus       147 ~~a~  150 (172)
                      ++..
T Consensus        72 ~~~~   75 (90)
T PF11608_consen   72 SFSP   75 (90)
T ss_dssp             ESS-
T ss_pred             EEcC
Confidence            9985

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

>KOG4211|consensus

Probab=98.44  E-value=9.8e-07  Score=72.49  Aligned_cols=87  Identities=16%  Similarity=0.174  Sum_probs=70.9

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      .....|-+++||+.+++++|.+||+.+-++.. .+.++.+. .++..|-|||.|.+.+.|+.||.. |...|+.|-|.|.
T Consensus       101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~-gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF  177 (510)
T KOG4211|consen  101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPD-GILLPMDQ-RGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVF  177 (510)
T ss_pred             CCCceEEecCCCccCcHHHHHHHhcCCccccc-ceeeeccC-CCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEee
Confidence            35568999999999999999999998883222 45566666 677899999999999999999996 8889999999999


Q ss_pred             ccCCCCcchh
Q psy8001         148 YPTRNVLYQF  157 (172)
Q Consensus       148 ~a~~~~~~~~  157 (172)
                      .+.......+
T Consensus       178 ~Ss~~e~~~~  187 (510)
T KOG4211|consen  178 RSSRAEVKRA  187 (510)
T ss_pred             hhHHHHHHhh
Confidence            8875443333

>KOG1995|consensus

Probab=98.36  E-value=6.4e-07  Score=70.99  Aligned_cols=86  Identities=19%  Similarity=0.243  Sum_probs=77.2

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeE--------EEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFI--------DVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL  137 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~--------~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~  137 (172)
                      ......+|||-+|+..+++.+|.++|.++|  .|.        .|+|..|+.|+..||-|.|+|.+...|+.||..+++.
T Consensus        62 ~~s~~~ti~v~g~~d~~~~~~~~~~f~qcg--~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agk  139 (351)
T KOG1995|consen   62 DKSDNETIFVWGCPDSVCENDNADFFLQCG--VIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGK  139 (351)
T ss_pred             cccccccceeeccCccchHHHHHHHHhhcc--eeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccc
Confidence            355667899999999999999999999999  442        3778889999999999999999999999999999999


Q ss_pred             eeCCcccEEeccCCCC
Q psy8001         138 ELHGRKPMVAYPTRNV  153 (172)
Q Consensus       138 ~l~g~~l~v~~a~~~~  153 (172)
                      .++|..|+|..|...+
T Consensus       140 df~gn~ikvs~a~~r~  155 (351)
T KOG1995|consen  140 DFCGNTIKVSLAERRT  155 (351)
T ss_pred             cccCCCchhhhhhhcc
Confidence            9999999999987654

>KOG1456|consensus

Probab=98.21  E-value=9.2e-05  Score=59.42  Aligned_cols=82  Identities=20%  Similarity=0.272  Sum_probs=72.8

Q ss_pred             CCCCCCcceEEEcCCCC-CCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          64 QATSSSHCNLYVGNLTW-WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        64 ~~~~~~~~~v~V~nL~~-~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      +.....++.++|.+|.. .++.+.|..+|..||  +|.+|++++.+     .|-|.|++.+..+.++|+..||+..+-|.
T Consensus       281 p~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYG--NV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~  353 (494)
T KOG1456|consen  281 PGGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYG--NVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGG  353 (494)
T ss_pred             CCCCCCCcEEEEEeccccccchhhhhhhhhhcC--ceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccc
Confidence            34556788999999985 566788999999999  99999999865     57899999999999999999999999999


Q ss_pred             ccEEeccCCC
Q psy8001         143 KPMVAYPTRN  152 (172)
Q Consensus       143 ~l~v~~a~~~  152 (172)
                      +|.|..++..
T Consensus       354 kl~v~~SkQ~  363 (494)
T KOG1456|consen  354 KLNVCVSKQN  363 (494)
T ss_pred             eEEEeecccc
Confidence            9999999863

>KOG1457|consensus

Probab=98.08  E-value=4.3e-06  Score=62.62  Aligned_cols=67  Identities=18%  Similarity=0.167  Sum_probs=54.4

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH  140 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~  140 (172)
                      ....+|||.||...++|++|+++|+.|.  ....++|. .+ +|  -..||++|.+.+.|..|+..|+|..|.
T Consensus       208 ~acstlfianl~~~~~ed~l~~~~~~~~--gf~~l~~~-~~-~g--~~vaf~~~~~~~~at~am~~lqg~~~s  274 (284)
T KOG1457|consen  208 RACSTLFIANLGPNCTEDELKQLLSRYP--GFHILKIR-AR-GG--MPVAFADFEEIEQATDAMNHLQGNLLS  274 (284)
T ss_pred             hhhhhHhhhccCCCCCHHHHHHHHHhCC--CceEEEEe-cC-CC--cceEeecHHHHHHHHHHHHHhhcceec
Confidence            3456799999999999999999999998  66666652 22 22  348999999999999999999988663

>KOG0106|consensus

Probab=98.08  E-value=3.8e-06  Score=63.12  Aligned_cols=75  Identities=27%  Similarity=0.387  Sum_probs=64.1

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      .+....+.+.|-|+.-.+.+.+|.++|..+|  .+....+        ..+++||+|.+.+++..|+..|+|..+.|+.|
T Consensus        94 ~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g--~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l  163 (216)
T KOG0106|consen   94 PPSRTHFRLIVRNLSLRVSWQDLKDHFRPAG--EVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRI  163 (216)
T ss_pred             CcccccceeeeccchhhhhHHHHhhhhcccC--CCchhhh--------hccccceeehhhhhhhhcchhccchhhcCcee
Confidence            4455678999999999999999999999999  5533222        45799999999999999999999999999999


Q ss_pred             EEecc
Q psy8001         145 MVAYP  149 (172)
Q Consensus       145 ~v~~a  149 (172)
                      .+...
T Consensus       164 ~~~~~  168 (216)
T KOG0106|consen  164 SVEKN  168 (216)
T ss_pred             eeccc
Confidence            99544

>KOG0147|consensus

Probab=98.08  E-value=1.4e-06  Score=72.38  Aligned_cols=82  Identities=20%  Similarity=0.325  Sum_probs=74.5

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      +.....+||+--|....+..+|.++|+..|  .|..|.++.|+.++.++|-|||+|.+.+....||. |.|..+.|..|.
T Consensus       175 eERd~Rtvf~~qla~r~~pRdL~efFs~~g--kVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv~  251 (549)
T KOG0147|consen  175 EERDQRTVFCMQLARRNPPRDLEEFFSIVG--KVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVI  251 (549)
T ss_pred             hHHhHHHHHHHHHhhcCCchhHHHHHHhhc--CcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCceeE
Confidence            344567888888888999999999999999  99999999999999999999999999999999995 899999999999


Q ss_pred             EeccC
Q psy8001         146 VAYPT  150 (172)
Q Consensus       146 v~~a~  150 (172)
                      |....
T Consensus       252 vq~sE  256 (549)
T KOG0147|consen  252 VQLSE  256 (549)
T ss_pred             ecccH
Confidence            98664

>KOG4210|consensus

Probab=98.04  E-value=3.1e-06  Score=66.66  Aligned_cols=81  Identities=23%  Similarity=0.384  Sum_probs=73.4

Q ss_pred             cceEE-EcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          70 HCNLY-VGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        70 ~~~v~-V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++| |+||++.+++++|+.+|..+|  .+..+++..+..++..+||+|+.|........++.. +...+.++.+.+.+
T Consensus       184 s~~~~~~~~~~f~~~~d~~~~~~~~~~--~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  260 (285)
T KOG4210|consen  184 SDTIFFVGELDFSLTRDDLKEHFVSSG--EITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEE  260 (285)
T ss_pred             cccceeecccccccchHHHhhhccCcC--cceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCccccccc
Confidence            34555 999999999999999999999  899999999999999999999999999999999886 88899999999999


Q ss_pred             cCCCC
Q psy8001         149 PTRNV  153 (172)
Q Consensus       149 a~~~~  153 (172)
                      ..+..
T Consensus       261 ~~~~~  265 (285)
T KOG4210|consen  261 DEPRP  265 (285)
T ss_pred             CCCCc
Confidence            88754

>KOG4206|consensus

Probab=97.98  E-value=4.3e-05  Score=57.26  Aligned_cols=78  Identities=13%  Similarity=0.240  Sum_probs=68.0

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC-Cccc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH-GRKP  144 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~-g~~l  144 (172)
                      ..+++..+|+.|||..++.+.+..+|.+|.  ...+++++..+     ++.|||+|.+...+..|...|+|..|- ...|
T Consensus       142 ~~ppn~ilf~~niP~es~~e~l~~lf~qf~--g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m  214 (221)
T KOG4206|consen  142 MAPPNNILFLTNIPSESESEMLSDLFEQFP--GFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKITKKNTM  214 (221)
T ss_pred             CCCCceEEEEecCCcchhHHHHHHHHhhCc--ccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceeccCceE
Confidence            355677899999999999999999999999  89999887653     679999999999999999999999887 6778


Q ss_pred             EEeccC
Q psy8001         145 MVAYPT  150 (172)
Q Consensus       145 ~v~~a~  150 (172)
                      .|.+++
T Consensus       215 ~i~~a~  220 (221)
T KOG4206|consen  215 QITFAK  220 (221)
T ss_pred             EecccC
Confidence            887764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.81  E-value=5.6e-05  Score=59.93  Aligned_cols=79  Identities=14%  Similarity=0.183  Sum_probs=60.2

Q ss_pred             cceEEEcCCCCCCCHHH----H--HHHHHhcCCCCeEEEEEEecCCCCC-cccE--EEEEeCCHHHHHHHHHHCCCceeC
Q psy8001          70 HCNLYVGNLTWWTTEAD----M--SDAIRSIGVPDFIDVKFFENASNGQ-SKGF--CTVTLGSEESMSLVMERLPTLELH  140 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~----l--~~~f~~~g~~~~~~~~i~~~~~~g~-~~g~--afv~f~~~~~a~~al~~l~g~~l~  140 (172)
                      ..-+||-+|++.+..++    |  .++|.+||  .|..|.|.+.-.... ..+.  .|++|.+.++|.+||...+|..++
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyG--kI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~D  191 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYG--KIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLD  191 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhcc--ceeEEEecccccccccccccceEEEEecchHHHHHHHHHhcccccc
Confidence            34689999998776665    2  47899999  888886644321111 1233  399999999999999999999999


Q ss_pred             CcccEEeccC
Q psy8001         141 GRKPMVAYPT  150 (172)
Q Consensus       141 g~~l~v~~a~  150 (172)
                      ||.|+..+-.
T Consensus       192 Gr~lkatYGT  201 (480)
T COG5175         192 GRVLKATYGT  201 (480)
T ss_pred             CceEeeecCc
Confidence            9999987754

>KOG4307|consensus

Probab=97.73  E-value=0.00013  Score=62.74  Aligned_cols=76  Identities=18%  Similarity=0.211  Sum_probs=65.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      +.|-|.|+|+.++-+||.+||..|-+ ...+|.+-++ +.|...|-|-|.|.+.++|.+|...|++..|.+|+|.+..
T Consensus       868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~-~p~sI~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i  943 (944)
T KOG4307|consen  868 RVLSCNNFPFDVTLEDIVEFFNDYEP-DPNSIRIRRN-DDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI  943 (944)
T ss_pred             eEEEecCCCccccHHHHHHHhccccc-CCCceeEeec-CCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence            37889999999999999999999983 3445554443 4789999999999999999999999999999999988763

>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=97.71  E-value=7e-05  Score=50.40  Aligned_cols=71  Identities=20%  Similarity=0.287  Sum_probs=43.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc-----eeCCccc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL-----ELHGRKP  144 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~-----~l~g~~l  144 (172)
                      ++.|.|.+++..++-++|++.|+.||  .|..|.+...      ---|||-|.+.+.|+.|+..+...     .|.+..+
T Consensus         1 G~il~~~g~~~~~~re~iK~~f~~~g--~V~yVD~~~G------~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~   72 (105)
T PF08777_consen    1 GCILKFSGLGEPTSREDIKEAFSQFG--EVAYVDFSRG------DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEV   72 (105)
T ss_dssp             --EEEEEE--SS--HHHHHHHT-SS----EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSE
T ss_pred             CeEEEEecCCCCcCHHHHHHHHHhcC--CcceEEecCC------CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceE
Confidence            46789999999999999999999999  8999887442      238999999999999998866544     5556555


Q ss_pred             EEec
Q psy8001         145 MVAY  148 (172)
Q Consensus       145 ~v~~  148 (172)
                      .++.
T Consensus        73 ~~~v   76 (105)
T PF08777_consen   73 TLEV   76 (105)
T ss_dssp             EEE-
T ss_pred             EEEE
Confidence            5543

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

>KOG1365|consensus

Probab=97.66  E-value=0.00015  Score=58.49  Aligned_cols=81  Identities=15%  Similarity=0.137  Sum_probs=68.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCC-CCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGV-PDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~-~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      .-+|.+++||+.++.++|-++|..|.. +....|+++.+- .|+..|-|||+|.+.++|.+|....|.+...+|.|.|..
T Consensus       280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp  358 (508)
T KOG1365|consen  280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFP  358 (508)
T ss_pred             CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEee
Confidence            558999999999999999999998873 023458888875 688889999999999999999998888887899999987


Q ss_pred             cCC
Q psy8001         149 PTR  151 (172)
Q Consensus       149 a~~  151 (172)
                      +.-
T Consensus       359 ~S~  361 (508)
T KOG1365|consen  359 CSV  361 (508)
T ss_pred             ccH
Confidence            754

>KOG3152|consensus

Probab=97.61  E-value=4.3e-05  Score=58.33  Aligned_cols=73  Identities=15%  Similarity=0.182  Sum_probs=61.2

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCC--------CCccc----EEEEEeCCHHHHHHHHHHCCC
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASN--------GQSKG----FCTVTLGSEESMSLVMERLPT  136 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~--------g~~~g----~afv~f~~~~~a~~al~~l~g  136 (172)
                      ....||+++||+.++..-|+++|+.||  .|-.|.+-....+        |.+++    -|.|+|.+...|.++...||+
T Consensus        73 k~GVvylS~IPp~m~~~rlReil~~yG--eVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn  150 (278)
T KOG3152|consen   73 KTGVVYLSNIPPYMDPVRLREILSQYG--EVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNN  150 (278)
T ss_pred             cceEEEeccCCCccCHHHHHHHHHhcc--ccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCC
Confidence            446899999999999999999999999  7888887665544        33332    267899999999999999999


Q ss_pred             ceeCCcc
Q psy8001         137 LELHGRK  143 (172)
Q Consensus       137 ~~l~g~~  143 (172)
                      ..|+|++
T Consensus       151 ~~Iggkk  157 (278)
T KOG3152|consen  151 TPIGGKK  157 (278)
T ss_pred             CccCCCC
Confidence            9999986

>KOG0105|consensus

Probab=97.58  E-value=0.0004  Score=50.87  Aligned_cols=69  Identities=19%  Similarity=0.237  Sum_probs=59.9

Q ss_pred             CCCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          64 QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        64 ~~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      ++.....+.|.|++||.+.++++|+++..+-|  .++...+.+|       |++.|+|-..++.+-|++.|+...+..
T Consensus       109 ppsrrSe~RVvVsGLp~SgSWQDLKDHmReaG--dvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~s  177 (241)
T KOG0105|consen  109 PPSRRSEYRVVVSGLPPSGSWQDLKDHMREAG--DVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFRS  177 (241)
T ss_pred             CcccccceeEEEecCCCCCchHHHHHHHHhhC--Ceeeeeeecc-------cceeeeeeehhhHHHHHHhhccccccC
Confidence            34445678999999999999999999999999  8998888665       488999999999999999999886653

>KOG2314|consensus

Probab=97.51  E-value=0.00025  Score=59.71  Aligned_cols=80  Identities=13%  Similarity=0.147  Sum_probs=63.0

Q ss_pred             CCcceEEEcCCCCCCCH------HHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC-
Q psy8001          68 SSHCNLYVGNLTWWTTE------ADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH-  140 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~------~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~-  140 (172)
                      .-...|+|-|+|-.-..      .-|..+|+++|  .+....+.-+.. |.++||.|++|.+..+|+.|++.|||..|+ 
T Consensus        56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~g--k~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldk  132 (698)
T KOG2314|consen   56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAG--KIVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLNGKRLDK  132 (698)
T ss_pred             CcceEEEECCCcccChhHHHHHHHHHHHHHHhhc--cccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhcccceecc
Confidence            34457889999853322      23567899999  888888887774 449999999999999999999999999886 


Q ss_pred             CcccEEeccC
Q psy8001         141 GRKPMVAYPT  150 (172)
Q Consensus       141 g~~l~v~~a~  150 (172)
                      ++++.|..-+
T Consensus       133 nHtf~v~~f~  142 (698)
T KOG2314|consen  133 NHTFFVRLFK  142 (698)
T ss_pred             cceEEeehhh
Confidence            5677776543

>KOG1190|consensus

Probab=97.45  E-value=0.00039  Score=56.49  Aligned_cols=78  Identities=15%  Similarity=0.152  Sum_probs=63.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc-ccEE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR-KPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~-~l~v  146 (172)
                      ++..++..+|+|.+++|++++..|...|  ...+....    -++.+-++++.+.+.++|-.|+..+|.+.+++. .|+|
T Consensus       412 PpsatlHlsnip~svsee~lk~~f~~~g--~~vkafkf----f~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRv  485 (492)
T KOG1190|consen  412 PPSATLHLSNIPPSVSEEDLKNLFQEPG--GQVKAFKF----FQKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRV  485 (492)
T ss_pred             CchhheeeccCCcccchhHHHHhhhcCC--ceEEeeee----cCCCcceeecccCChhHhhhhccccccccCCCCceEEE
Confidence            4566899999999999999999999888  44333222    333456999999999999999999999998765 8999


Q ss_pred             eccCC
Q psy8001         147 AYPTR  151 (172)
Q Consensus       147 ~~a~~  151 (172)
                      ++++.
T Consensus       486 SFSks  490 (492)
T KOG1190|consen  486 SFSKS  490 (492)
T ss_pred             Eeecc
Confidence            99874

>KOG1548|consensus

Probab=97.38  E-value=0.00084  Score=53.45  Aligned_cols=85  Identities=13%  Similarity=0.256  Sum_probs=64.5

Q ss_pred             CCCcceEEEcCCC----CCCC-------HHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCC
Q psy8001          67 SSSHCNLYVGNLT----WWTT-------EADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP  135 (172)
Q Consensus        67 ~~~~~~v~V~nL~----~~~~-------~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~  135 (172)
                      ....++|.+.|+=    +..+       .++|++-..+||  .+.+|.|. ++   ...|.+-|.|.+.++|..||+.|+
T Consensus       262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G--~v~~vvv~-d~---hPdGvvtV~f~n~eeA~~ciq~m~  335 (382)
T KOG1548|consen  262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFG--QVRKVVVY-DR---HPDGVVTVSFRNNEEADQCIQTMD  335 (382)
T ss_pred             ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhC--CcceEEEe-cc---CCCceeEEEeCChHHHHHHHHHhc
Confidence            3456788888873    2233       245666778999  78888654 33   256899999999999999999999


Q ss_pred             CceeCCcccEEeccCCCCcchh
Q psy8001         136 TLELHGRKPMVAYPTRNVLYQF  157 (172)
Q Consensus       136 g~~l~g~~l~v~~a~~~~~~~~  157 (172)
                      |.-++||+|..+........+.
T Consensus       336 GR~fdgRql~A~i~DG~t~~~~  357 (382)
T KOG1548|consen  336 GRWFDGRQLTASIWDGKTKFQT  357 (382)
T ss_pred             CeeecceEEEEEEeCCcceeee
Confidence            9999999999988776554443

>KOG1365|consensus

Probab=97.33  E-value=0.00031  Score=56.63  Aligned_cols=82  Identities=16%  Similarity=0.173  Sum_probs=62.1

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhc-CCC-CeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSI-GVP-DFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~-g~~-~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .+.-.|.+++||+++++.++.++|... -+- ....|-++... +|+..|-|||.|..+++|+.||.. |...|+-|.|.
T Consensus       159 ~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIE  236 (508)
T KOG1365|consen  159 ENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIE  236 (508)
T ss_pred             ccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHH
Confidence            445567888999999999999999621 100 23455555544 788899999999999999999986 77777777787


Q ss_pred             EeccCC
Q psy8001         146 VAYPTR  151 (172)
Q Consensus       146 v~~a~~  151 (172)
                      +..+..
T Consensus       237 lFRSTa  242 (508)
T KOG1365|consen  237 LFRSTA  242 (508)
T ss_pred             HHHHhH
Confidence            766543

>KOG1456|consensus

Probab=97.18  E-value=0.0017  Score=52.29  Aligned_cols=82  Identities=16%  Similarity=0.139  Sum_probs=64.7

Q ss_pred             CCcceEEEc--CCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC--Ccc
Q psy8001          68 SSHCNLYVG--NLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH--GRK  143 (172)
Q Consensus        68 ~~~~~v~V~--nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~--g~~  143 (172)
                      ..+..|.+.  |--+.+|-+-|..+....|  ++.+|.|+..  +|.   .|.|+|.+.+.|++|...|||..|.  .-.
T Consensus       118 ~pN~VLl~TIlNp~YpItvDVly~Icnp~G--kVlRIvIfkk--ngV---QAmVEFdsv~~AqrAk~alNGADIYsGCCT  190 (494)
T KOG1456|consen  118 TPNKVLLFTILNPQYPITVDVLYTICNPQG--KVLRIVIFKK--NGV---QAMVEFDSVEVAQRAKAALNGADIYSGCCT  190 (494)
T ss_pred             CCCeEEEEEeecCccccchhhhhhhcCCCC--ceEEEEEEec--cce---eeEEeechhHHHHHHHhhccccccccccee
Confidence            334444444  4446788888999999999  8999987664  555   7999999999999999999999774  369


Q ss_pred             cEEeccCCCCcch
Q psy8001         144 PMVAYPTRNVLYQ  156 (172)
Q Consensus       144 l~v~~a~~~~~~~  156 (172)
                      |+|++|++..++=
T Consensus       191 LKIeyAkP~rlnV  203 (494)
T KOG1456|consen  191 LKIEYAKPTRLNV  203 (494)
T ss_pred             EEEEecCcceeee
Confidence            9999999855443

>KOG0120|consensus

Probab=97.15  E-value=0.0014  Score=55.13  Aligned_cols=63  Identities=17%  Similarity=0.209  Sum_probs=51.4

Q ss_pred             HHHHHHHhcCCCCeEEEEEEecCCC---CCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          86 DMSDAIRSIGVPDFIDVKFFENASN---GQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        86 ~l~~~f~~~g~~~~~~~~i~~~~~~---g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      +++.-+++||  .+..|.+.+.-.+   .-..|--||+|.+.+++++|.+.|+|..+.||.|...|-.
T Consensus       425 dvr~ec~k~g--~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyd  490 (500)
T KOG0120|consen  425 DVRTECAKFG--AVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYD  490 (500)
T ss_pred             HHHHHhcccC--ceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecC
Confidence            3455677889  7888888776222   2346789999999999999999999999999999988864

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

Probab=97.13  E-value=0.0019  Score=45.69  Aligned_cols=55  Identities=18%  Similarity=0.297  Sum_probs=42.9

Q ss_pred             HHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccCC
Q psy8001          86 DMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTR  151 (172)
Q Consensus        86 ~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~~  151 (172)
                      +|-+.|..||  .+.=++++.        +.-.|+|.+...|.+|+. |+|..++|+.|+|+...+
T Consensus        52 ~ll~~~~~~G--evvLvRfv~--------~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtp  106 (146)
T PF08952_consen   52 ELLQKFAQYG--EVVLVRFVG--------DTMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTP  106 (146)
T ss_dssp             HHHHHHHCCS---ECEEEEET--------TCEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE---
T ss_pred             HHHHHHHhCC--ceEEEEEeC--------CeEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCc
Confidence            5677888899  666556543        356899999999999998 799999999999998765

; PDB: 1UFW_A 2DNR_A.

>KOG2193|consensus

Probab=97.09  E-value=0.00054  Score=55.98  Aligned_cols=73  Identities=21%  Similarity=0.278  Sum_probs=58.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc-eeCCcccEEecc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL-ELHGRKPMVAYP  149 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~-~l~g~~l~v~~a  149 (172)
                      ..+|++||.+.++.++|..+|...-. ....-.++       ..||+||...+...|.+|++.++|. ++.|+++.|.++
T Consensus         2 nklyignL~p~~~psdl~svfg~ak~-~~~g~fl~-------k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~s   73 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAKI-PGSGQFLV-------KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHS   73 (584)
T ss_pred             CcccccccCCCCChHHHHHHhccccC-CCCcceee-------ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccch
Confidence            36899999999999999999975431 11111122       3589999999999999999999998 899999999887


Q ss_pred             CC
Q psy8001         150 TR  151 (172)
Q Consensus       150 ~~  151 (172)
                      -+
T Consensus        74 v~   75 (584)
T KOG2193|consen   74 VP   75 (584)
T ss_pred             hh
Confidence            65

>KOG0129|consensus

Probab=97.04  E-value=0.0024  Score=53.34  Aligned_cols=66  Identities=15%  Similarity=0.196  Sum_probs=58.4

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHH-hcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHH
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIR-SIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMER  133 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~-~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~  133 (172)
                      .-++..+||||+||.-++.++|-.+|. -||  .|..+.|-.|..-.-.+|=|-|+|.+..+.-+||.+
T Consensus       366 ~lDprrTVFVGgvprpl~A~eLA~imd~lyG--gV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa  432 (520)
T KOG0129|consen  366 PIDPRRTVFVGGLPRPLTAEELAMIMEDLFG--GVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA  432 (520)
T ss_pred             ccCccceEEecCCCCcchHHHHHHHHHHhcC--ceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence            345678999999999999999999998 699  899999988865677899999999999999999973

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

Probab=96.94  E-value=0.0034  Score=36.78  Aligned_cols=52  Identities=12%  Similarity=0.168  Sum_probs=40.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHH
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM  131 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al  131 (172)
                      +.|-|.+.+.... +.+..+|..||  .|..+.+.      ....+.++.|.+..+|++||
T Consensus         2 ~wI~V~Gf~~~~~-~~vl~~F~~fG--eI~~~~~~------~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLA-EEVLEHFASFG--EIVDIYVP------ESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHH-HHHHHHHHhcC--CEEEEEcC------CCCcEEEEEECCHHHHHhhC
Confidence            3577888886665 44666999999  88887763      23459999999999999985

>KOG2416|consensus

Probab=96.88  E-value=0.0045  Score=52.66  Aligned_cols=83  Identities=16%  Similarity=0.206  Sum_probs=65.0

Q ss_pred             CCCCCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee--
Q psy8001          62 HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL--  139 (172)
Q Consensus        62 ~~~~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l--  139 (172)
                      +.+........|+|.||=.-.|.-.|+.++..-|- .|... + +|+    -+..|||.|.+.++|...+.+|||..+  
T Consensus       436 pSPsR~~~SnvlhI~nLvRPFTlgQLkelL~rtgg-~Vee~-W-mDk----IKShCyV~yss~eEA~atr~AlhnV~WP~  508 (718)
T KOG2416|consen  436 PSPSRKEPSNVLHIDNLVRPFTLGQLKELLGRTGG-NVEEF-W-MDK----IKSHCYVSYSSVEEAAATREALHNVQWPP  508 (718)
T ss_pred             CCCCCCCccceEeeecccccchHHHHHHHHhhccC-chHHH-H-HHH----hhcceeEecccHHHHHHHHHHHhccccCC
Confidence            34555666778999999999999999999995441 44444 2 233    477999999999999999999999965  


Q ss_pred             -CCcccEEeccCC
Q psy8001         140 -HGRKPMVAYPTR  151 (172)
Q Consensus       140 -~g~~l~v~~a~~  151 (172)
                       +++.|.+.|...
T Consensus       509 sNPK~L~adf~~~  521 (718)
T KOG2416|consen  509 SNPKHLIADFVRA  521 (718)
T ss_pred             CCCceeEeeecch
Confidence             567888888875

>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=96.86  E-value=0.0064  Score=40.46  Aligned_cols=77  Identities=9%  Similarity=0.025  Sum_probs=51.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEE-EEecC------CCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVK-FFENA------SNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~-i~~~~------~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      .+.|.|-+.|.. ....+-+.|++||  .|.+.. +.++.      .......+-.|.|.+..+|.+||.. ||..|.|.
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G--~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~-NG~i~~g~   81 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFG--TILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK-NGTIFSGS   81 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS---EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT-TTEEETTC
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcc--eEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh-CCeEEcCc
Confidence            456889999987 4567888999999  776553 11100      0012345899999999999999984 99999885


Q ss_pred             -ccEEeccC
Q psy8001         143 -KPMVAYPT  150 (172)
Q Consensus       143 -~l~v~~a~  150 (172)
                       .+-|.+++
T Consensus        82 ~mvGV~~~~   90 (100)
T PF05172_consen   82 LMVGVKPCD   90 (100)
T ss_dssp             EEEEEEE-H
T ss_pred             EEEEEEEcH
Confidence             55677764

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.

>KOG0112|consensus

Probab=96.85  E-value=0.0072  Score=53.66  Aligned_cols=80  Identities=15%  Similarity=0.271  Sum_probs=68.2

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC--cc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG--RK  143 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g--~~  143 (172)
                      .......+|+++|..++....|...|..||  .+..|.+  +  .|  .-|+++.|.+...++.|+..|-|..|+|  ++
T Consensus       451 kst~ttr~~sgglg~w~p~~~l~r~fd~fG--pir~Idy--~--hg--q~yayi~yes~~~aq~a~~~~rgap~G~P~~r  522 (975)
T KOG0112|consen  451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFG--PIRIIDY--R--HG--QPYAYIQYESPPAAQAATHDMRGAPLGGPPRR  522 (975)
T ss_pred             ccccceeeccCCCCCCChHHHHHHHhhccC--cceeeec--c--cC--CcceeeecccCccchhhHHHHhcCcCCCCCcc
Confidence            456678999999999999999999999999  7776554  2  23  3599999999999999999999999987  78


Q ss_pred             cEEeccCCCC
Q psy8001         144 PMVAYPTRNV  153 (172)
Q Consensus       144 l~v~~a~~~~  153 (172)
                      |+|.++....
T Consensus       523 ~rvdla~~~~  532 (975)
T KOG0112|consen  523 LRVDLASPPG  532 (975)
T ss_pred             cccccccCCC
Confidence            9999998643

>KOG0128|consensus

Probab=96.82  E-value=0.00065  Score=59.63  Aligned_cols=80  Identities=11%  Similarity=0.176  Sum_probs=71.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ...|+|+|.|+..|.++|+.++..+|  .+..+.++..+ .|+.+|-+||.|.+..++.+++...+...+..+.+.|..+
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~g--n~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vs  812 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKTG--NVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVS  812 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhccccC--Cccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCcccccc
Confidence            46789999999999999999999999  78888877777 8999999999999999999999888888888888888876


Q ss_pred             CCC
Q psy8001         150 TRN  152 (172)
Q Consensus       150 ~~~  152 (172)
                      .+.
T Consensus       813 np~  815 (881)
T KOG0128|consen  813 NPE  815 (881)
T ss_pred             CCc
Confidence            653

>KOG0129|consensus

Probab=96.78  E-value=0.0047  Score=51.65  Aligned_cols=63  Identities=24%  Similarity=0.493  Sum_probs=46.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCC-CC--Cccc---EEEEEeCCHHHHHHHHHHCC
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENAS-NG--QSKG---FCTVTLGSEESMSLVMERLP  135 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~-~g--~~~g---~afv~f~~~~~a~~al~~l~  135 (172)
                      .+.||||+||+.++|+.|...|..||  . ..|.+..... .+  -.+|   |.|+.|.++.+....|.++.
T Consensus       259 S~KVFvGGlp~dise~~i~~~F~~FG--s-~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~  327 (520)
T KOG0129|consen  259 SRKVFVGGLPWDITEAQINASFGQFG--S-VKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS  327 (520)
T ss_pred             ccceeecCCCccccHHHHHhhccccc--c-eEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence            46899999999999999999999999  3 2333332110 11  1356   99999999998887776544

>KOG4307|consensus

Probab=96.66  E-value=0.0063  Score=52.77  Aligned_cols=85  Identities=11%  Similarity=-0.062  Sum_probs=67.6

Q ss_pred             CCCCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEE-EEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          63 SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFID-VKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        63 ~~~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~-~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      .+.+...+.+|||-.||..+++..+.++|+..-  .|+. |.|-+.+ +++.++-|||.|...+++..|+..-+-..++.
T Consensus       427 vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~--~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~  503 (944)
T KOG4307|consen  427 VPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAA--AVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGH  503 (944)
T ss_pred             CCCCCCccceEEeccCCccccccchhhhhhhhh--hhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCc
Confidence            345667788999999999999999999999877  4544 6666666 77888999999999888888877545556677


Q ss_pred             cccEEeccC
Q psy8001         142 RKPMVAYPT  150 (172)
Q Consensus       142 ~~l~v~~a~  150 (172)
                      |.|+|.-..
T Consensus       504 r~irv~si~  512 (944)
T KOG4307|consen  504 RIIRVDSIA  512 (944)
T ss_pred             eEEEeechh
Confidence            888887544

>KOG2253|consensus

Probab=96.61  E-value=0.0047  Score=53.05  Aligned_cols=73  Identities=12%  Similarity=0.076  Sum_probs=61.4

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ..+...+|||+|+...+..+.++.++..+|  .+..++.+         -|||+.|.......+|+..|+-..++|.++.
T Consensus        36 ~~~~~~~vfv~~~~~~~s~~~~~~il~~~g--~v~s~kr~---------~fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~  104 (668)
T KOG2253|consen   36 PLPPRDTVFVGNISYLVSQEFWKSILAKSG--FVPSWKRD---------KFGFCEFLKHIGDLRASRLLTELNIDDQKLI  104 (668)
T ss_pred             CCCCCceeEecchhhhhhHHHHHHHHhhCC--cchhhhhh---------hhcccchhhHHHHHHHHHHhcccCCCcchhh
Confidence            344556899999999999999999999999  56655432         2999999999999999999999999999887


Q ss_pred             Eecc
Q psy8001         146 VAYP  149 (172)
Q Consensus       146 v~~a  149 (172)
                      +...
T Consensus       105 ~~~d  108 (668)
T KOG2253|consen  105 ENVD  108 (668)
T ss_pred             ccch
Confidence            7653

>KOG4676|consensus

Probab=96.50  E-value=0.0045  Score=50.19  Aligned_cols=75  Identities=16%  Similarity=0.246  Sum_probs=60.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCC---CCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASN---GQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~---g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      .|.|.||.+.++.+.++.+|.-+|  .|..+.++-+..+   ......|||.|.+...+..|- .|.++.+-++.|.|..
T Consensus         9 vIqvanispsat~dqm~tlFg~lG--kI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdraliv~p   85 (479)
T KOG4676|consen    9 VIQVANISPSATKDQMQTLFGNLG--KIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVRP   85 (479)
T ss_pred             eeeecccCchhhHHHHHHHHhhcc--ccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeeeeEEEEe
Confidence            899999999999999999999999  8999888764322   224568999999999988774 5777877777665554


Q ss_pred             c
Q psy8001         149 P  149 (172)
Q Consensus       149 a  149 (172)
                      .
T Consensus        86 ~   86 (479)
T KOG4676|consen   86 Y   86 (479)
T ss_pred             c
Confidence            3

>KOG0128|consensus

Probab=96.48  E-value=0.00023  Score=62.33  Aligned_cols=69  Identities=17%  Similarity=0.193  Sum_probs=57.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      -+++||+||+..+.+.+|...|..+|  .+..+.+...+.+++.+|+||+.|...+.+.+||.. +...+.|
T Consensus       667 ~~~~fvsnl~~~~~~~dl~~~~~~~~--~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f-~d~~~~g  735 (881)
T KOG0128|consen  667 LIKIFVSNLSPKMSEEDLSERFSPSG--TIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAF-RDSCFFG  735 (881)
T ss_pred             HHHHHHhhcchhhcCchhhhhcCccc--hhhhHHHHHHhhccccccceeeEeecCCchhhhhhh-hhhhhhh
Confidence            46789999999999999999999999  566665555666888999999999999999999985 4444444

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

Probab=96.47  E-value=0.031  Score=33.81  Aligned_cols=55  Identities=11%  Similarity=0.215  Sum_probs=43.2

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhc--CCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSI--GVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL  134 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~--g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l  134 (172)
                      .+|+|.++.. .+-++++.+|..|  +. ....|.++-|.       =|-|.|.+.+.|.+||..|
T Consensus         6 eavhirGvd~-lsT~dI~~y~~~y~~~~-~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    6 EAVHIRGVDE-LSTDDIKAYFSEYFDEE-GPFRIEWIDDT-------SCNVVFKDEETAARALVAL   62 (62)
T ss_pred             ceEEEEcCCC-CCHHHHHHHHHHhcccC-CCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence            4799999974 6667899999988  11 25678888775       4679999999999999864

>KOG2202|consensus

Probab=96.46  E-value=0.0018  Score=49.67  Aligned_cols=62  Identities=19%  Similarity=0.258  Sum_probs=49.3

Q ss_pred             HHHHHHH-hcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          86 DMSDAIR-SIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        86 ~l~~~f~-~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      ++...|. +||  .+.++.|..+. .-...|=.||.|...++|++|++.||+.-+.|++|.+++..
T Consensus        84 d~f~E~~~kyg--Eiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~p  146 (260)
T KOG2202|consen   84 DVFTELEDKYG--EIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP  146 (260)
T ss_pred             HHHHHHHHHhh--hhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence            3444455 889  78887665543 22347889999999999999999999999999999998774

>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=96.26  E-value=0.0065  Score=44.67  Aligned_cols=81  Identities=11%  Similarity=0.058  Sum_probs=50.0

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHh-cCCCCe---EEEEEEecC--CCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRS-IGVPDF---IDVKFFENA--SNGQSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~-~g~~~~---~~~~i~~~~--~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      ..+..|-|++||+..++++++..++. ++  ..   ..+.-....  .......-|||.|.+.+++......++|..+.+
T Consensus         5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~--~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D   82 (176)
T PF03467_consen    5 KEGTKVVIRRLPPNLTEEEFWEQISPWLP--DEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVD   82 (176)
T ss_dssp             ----EEEEEEE-TTS-HHHHCCCCSS--S--SE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-
T ss_pred             ccCceEEEeCCCCCCCHHHHHHHhhhhcc--cccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEEC
Confidence            34568999999999999999887776 66  44   233211221  112234679999999999999999999987755


Q ss_pred             cc-----cEEeccC
Q psy8001         142 RK-----PMVAYPT  150 (172)
Q Consensus       142 ~~-----l~v~~a~  150 (172)
                      .+     -.|++|-
T Consensus        83 ~kg~~~~~~VE~Ap   96 (176)
T PF03467_consen   83 SKGNEYPAVVEFAP   96 (176)
T ss_dssp             TTS-EEEEEEEE-S
T ss_pred             CCCCCcceeEEEcc
Confidence            33     3555554

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.

>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=96.21  E-value=0.023  Score=34.84  Aligned_cols=55  Identities=7%  Similarity=0.079  Sum_probs=43.7

Q ss_pred             CCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          81 WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        81 ~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      .++-++++..|..|+   ...|  ..|+ +|-     ||.|.+..+|++|.+..+|..+.+.+|.+
T Consensus        11 ~~~v~d~K~~Lr~y~---~~~I--~~d~-tGf-----YIvF~~~~Ea~rC~~~~~~~~~f~y~m~M   65 (66)
T PF11767_consen   11 GVTVEDFKKRLRKYR---WDRI--RDDR-TGF-----YIVFNDSKEAERCFRAEDGTLFFTYRMQM   65 (66)
T ss_pred             CccHHHHHHHHhcCC---cceE--EecC-CEE-----EEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence            456789999999999   3443  4454 433     89999999999999999999998887765

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

>KOG1855|consensus

Probab=95.91  E-value=0.011  Score=48.53  Aligned_cols=68  Identities=15%  Similarity=0.168  Sum_probs=55.1

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEec---CCC--CC--------cccEEEEEeCCHHHHHHHHHHC
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFEN---ASN--GQ--------SKGFCTVTLGSEESMSLVMERL  134 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~---~~~--g~--------~~g~afv~f~~~~~a~~al~~l  134 (172)
                      ...++|.+.|||.+-.-+-|.++|+.+|  .|..|+|+.-   ..+  +.        .+-+|+|+|...+.|.+|.+.|
T Consensus       229 l~srtivaenLP~Dh~~enl~kiFg~~G--~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~  306 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHSYENLSKIFGTVG--SIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELL  306 (484)
T ss_pred             cccceEEEecCCcchHHHHHHHHhhccc--ceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhh
Confidence            3577899999999888899999999999  8999998764   211  11        2558999999999999999977


Q ss_pred             CCc
Q psy8001         135 PTL  137 (172)
Q Consensus       135 ~g~  137 (172)
                      +..
T Consensus       307 ~~e  309 (484)
T KOG1855|consen  307 NPE  309 (484)
T ss_pred             chh
Confidence            544

>KOG0115|consensus

Probab=95.84  E-value=0.013  Score=45.02  Aligned_cols=75  Identities=19%  Similarity=0.128  Sum_probs=58.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc----eeCCcccEE
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL----ELHGRKPMV  146 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~----~l~g~~l~v  146 (172)
                      ..|||.||...+.-+.+.+.|+.||  .+....++.|- .++..+-++|.|...-.+..|+..+...    ...++..-|
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg--~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~V  108 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFG--PIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGV  108 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcC--ccchheeeecc-cccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCC
Confidence            6899999999999999999999999  77665544443 6778889999999999999999877444    334444444


Q ss_pred             ec
Q psy8001         147 AY  148 (172)
Q Consensus       147 ~~  148 (172)
                      ..
T Consensus       109 eP  110 (275)
T KOG0115|consen  109 EP  110 (275)
T ss_pred             Ch
Confidence            43

>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=95.79  E-value=0.14  Score=34.70  Aligned_cols=67  Identities=7%  Similarity=0.057  Sum_probs=48.5

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      .+-+...|..+..++|..+.+.+-. .+..++|++|..  .++=.+++.|.+.++|..-...+||..+..
T Consensus        15 ~~~l~vp~~~~~~d~l~~f~~~~~~-~i~~~riird~~--pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns   81 (110)
T PF07576_consen   15 LCCLAVPPYMTPSDFLLFFGAPFRE-DIEHIRIIRDGT--PNRYMVLIKFRDQESADEFYEEFNGKPFNS   81 (110)
T ss_pred             EEEEEeCcccccHHHHHHhhhcccc-cEEEEEEeeCCC--CceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence            3444555566666677666666553 578889988742  245568999999999999999999996654

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

>KOG2068|consensus

Probab=95.66  E-value=0.0055  Score=48.71  Aligned_cols=78  Identities=15%  Similarity=0.155  Sum_probs=59.4

Q ss_pred             ceEEEcCCCCCCCHHHH-H--HHHHhcCCCCeEEEEEEecCC----CCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc
Q psy8001          71 CNLYVGNLTWWTTEADM-S--DAIRSIGVPDFIDVKFFENAS----NGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK  143 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l-~--~~f~~~g~~~~~~~~i~~~~~----~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~  143 (172)
                      .-+||-+|+.....+++ +  ..|.+||  .+..|.+..+..    .+... -++|+|...++|..||...+|..++|+.
T Consensus        78 nlvyvvgl~~~~ade~~l~~~eyfgqyg--ki~ki~~~~~~S~~s~~~~~~-s~yITy~~~eda~rci~~v~g~~~dg~~  154 (327)
T KOG2068|consen   78 NLVYVVGLPLDLADESVLERTEYFGQYG--KINKIVKNKDPSSSSSSGGTC-SVYITYEEEEDADRCIDDVDGFVDDGRA  154 (327)
T ss_pred             hhhhhhCCCccccchhhhhCcccccccc--cceEEeecCCcccccCCCCCC-cccccccchHhhhhHHHHhhhHHhhhhh
Confidence            45788888876655444 3  5788999  888888777651    12222 3899999999999999999999999999


Q ss_pred             cEEeccCC
Q psy8001         144 PMVAYPTR  151 (172)
Q Consensus       144 l~v~~a~~  151 (172)
                      |+..+...
T Consensus       155 lka~~gtt  162 (327)
T KOG2068|consen  155 LKASLGTT  162 (327)
T ss_pred             hHHhhCCC
Confidence            87776654

>KOG1996|consensus

Probab=95.55  E-value=0.062  Score=42.28  Aligned_cols=63  Identities=17%  Similarity=0.117  Sum_probs=50.1

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEecCCCCCc-ccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          85 ADMSDAIRSIGVPDFIDVKFFENASNGQS-KGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        85 ~~l~~~f~~~g~~~~~~~~i~~~~~~g~~-~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ++++.-..+||  .+..|.|..++.-... .---||+|...++|-+|+--|||..|+||.++.-+-
T Consensus       301 de~keEceKyg--~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy  364 (378)
T KOG1996|consen  301 DETKEECEKYG--KVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFY  364 (378)
T ss_pred             HHHHHHHHhhc--ceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence            46677888999  8888887776533332 235899999999999999999999999998875443

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

Probab=95.40  E-value=0.08  Score=39.20  Aligned_cols=62  Identities=15%  Similarity=0.136  Sum_probs=44.6

Q ss_pred             CHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCC--CceeCCcccEEeccCCC
Q psy8001          83 TEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP--TLELHGRKPMVAYPTRN  152 (172)
Q Consensus        83 ~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~--g~~l~g~~l~v~~a~~~  152 (172)
                      ....|+++|..++  .+..+.++.      +-+-..|.|.+.+.|.+|...|+  +..+.|..++|.++...
T Consensus         8 ~~~~l~~l~~~~~--~~~~~~~L~------sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~   71 (184)
T PF04847_consen    8 NLAELEELFSTYD--PPVQFSPLK------SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT   71 (184)
T ss_dssp             -HHHHHHHHHTT---SS-EEEEET------TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred             hHHHHHHHHHhcC--CceEEEEcC------CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence            3478999999999  666665443      34568899999999999999999  99999999999988643

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

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=95.20  E-value=0.16  Score=35.87  Aligned_cols=76  Identities=11%  Similarity=0.105  Sum_probs=56.6

Q ss_pred             CCCCCcceEEEcCCCCCCC----HHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC
Q psy8001          65 ATSSSHCNLYVGNLTWWTT----EADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH  140 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~----~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~  140 (172)
                      ..+++..+|.|+=|..++.    -..+...++.||  .|.+|.+.     |  +.-|.|.|.+..+|-.|+.+++. ...
T Consensus        81 ~kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fG--pI~SVT~c-----G--rqsavVvF~d~~SAC~Av~Af~s-~~p  150 (166)
T PF15023_consen   81 TKEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFG--PIQSVTLC-----G--RQSAVVVFKDITSACKAVSAFQS-RAP  150 (166)
T ss_pred             CCCCCceeEEeehhhhcCChHHHHHHHHHHHHhcC--Ccceeeec-----C--CceEEEEehhhHHHHHHHHhhcC-CCC
Confidence            3456667888875544433    334556778899  89888762     2  34799999999999999998876 778


Q ss_pred             CcccEEeccC
Q psy8001         141 GRKPMVAYPT  150 (172)
Q Consensus       141 g~~l~v~~a~  150 (172)
                      |..+.++|-.
T Consensus       151 gtm~qCsWqq  160 (166)
T PF15023_consen  151 GTMFQCSWQQ  160 (166)
T ss_pred             CceEEeeccc
Confidence            8889998864

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

Probab=95.16  E-value=0.082  Score=33.87  Aligned_cols=53  Identities=17%  Similarity=0.236  Sum_probs=38.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCC
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP  135 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~  135 (172)
                      ..+|+ +|..|...||.++|+.||  . ..|.++.|-       =|||.....+.+..++..+.
T Consensus        11 VFhlt-FPkeWK~~DI~qlFspfG--~-I~VsWi~dT-------SAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen   11 VFHLT-FPKEWKTSDIYQLFSPFG--Q-IYVSWINDT-------SAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             EEEEE---TT--HHHHHHHCCCCC--C-EEEEEECTT-------EEEEEECCCHHHHHHHHHHT
T ss_pred             EEEEe-CchHhhhhhHHHHhccCC--c-EEEEEEcCC-------cEEEEeecHHHHHHHHHHhc
Confidence            44454 999999999999999999  3 345555542       79999999999999988765

; 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.

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

Probab=94.75  E-value=0.061  Score=33.61  Aligned_cols=61  Identities=26%  Similarity=0.315  Sum_probs=35.3

Q ss_pred             CCCCHHHHHHHHHhcC-CC--CeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          80 WWTTEADMSDAIRSIG-VP--DFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        80 ~~~~~~~l~~~f~~~g-~~--~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..++..+|-.++...+ ..  .|-.+.|.        ..|+||+... +.++.+++.|++..+.|++|+|+.|
T Consensus        11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~--------~~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~A   74 (74)
T PF03880_consen   11 DGLTPRDIVGAICNEAGIPGRDIGRIDIF--------DNFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA   74 (74)
T ss_dssp             GT--HHHHHHHHHTCTTB-GGGEEEEEE---------SS-EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred             cCCCHHHHHHHHHhccCCCHHhEEEEEEe--------eeEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence            4677888888888664 11  34456653        2399999976 4778899999999999999999865

; PDB: 2G0C_A 3MOJ_B.

>KOG0112|consensus

Probab=94.09  E-value=0.012  Score=52.30  Aligned_cols=80  Identities=14%  Similarity=0.105  Sum_probs=63.0

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...+.+||+|||+..+++.+|+..|..+|  .+..|.|-.-+ -+...-|+||.|.+...+-.|+..+.+..|..-.+++
T Consensus       369 ~~atrTLf~Gnl~~kl~eseiR~af~e~g--kve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~  445 (975)
T KOG0112|consen  369 FRATRTLFLGNLDSKLTESEIRPAFDESG--KVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRI  445 (975)
T ss_pred             hhhhhhhhhcCcccchhhhhhhhhhhhhc--cccccccccCC-CCcccchhhhhhhccccCcccchhhcCCccccCcccc
Confidence            34567899999999999999999999999  78888764433 2333459999999999999999989988776544444


Q ss_pred             ecc
Q psy8001         147 AYP  149 (172)
Q Consensus       147 ~~a  149 (172)
                      .+.
T Consensus       446 glG  448 (975)
T KOG0112|consen  446 GLG  448 (975)
T ss_pred             ccc
Confidence            444

>KOG4410|consensus

Probab=93.90  E-value=1.3  Score=35.00  Aligned_cols=50  Identities=14%  Similarity=0.169  Sum_probs=36.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCH
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE  124 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~  124 (172)
                      +..+.|+++||+.++.-.+|+..+.+.+  .. -..|.+    ..+.|-||+.|.+.
T Consensus       328 ~~~~di~~~nl~rd~rv~dlk~~lr~~~--~~-pm~isw----kg~~~k~flh~~~~  377 (396)
T KOG4410|consen  328 GAKTDIKLTNLSRDIRVKDLKSELRKRE--CT-PMSISW----KGHFGKCFLHFGNR  377 (396)
T ss_pred             ccccceeeccCccccchHHHHHHHHhcC--CC-ceeEee----ecCCcceeEecCCc
Confidence            4456799999999999999999999888  21 222322    22578899999653

>KOG2591|consensus

Probab=93.82  E-value=0.16  Score=43.23  Aligned_cols=75  Identities=15%  Similarity=0.219  Sum_probs=55.6

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc--eeCCccc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL--ELHGRKP  144 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~--~l~g~~l  144 (172)
                      ...+|.|.++.|+..+-.++++.+|..-.-+.+..|.+-.+.  +     =||+|.+..+|+.|.+.|...  .|.|+.|
T Consensus       172 ~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~--n-----WyITfesd~DAQqAykylreevk~fqgKpI  244 (684)
T KOG2591|consen  172 NHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND--N-----WYITFESDTDAQQAYKYLREEVKTFQGKPI  244 (684)
T ss_pred             CcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC--c-----eEEEeecchhHHHHHHHHHHHHHhhcCcch
Confidence            345788999999999999999999986331166677665542  2     289999999999998766544  6777776


Q ss_pred             EEec
Q psy8001         145 MVAY  148 (172)
Q Consensus       145 ~v~~  148 (172)
                      ..+.
T Consensus       245 mARI  248 (684)
T KOG2591|consen  245 MARI  248 (684)
T ss_pred             hhhh
Confidence            5443

>KOG4210|consensus

Probab=93.36  E-value=0.045  Score=43.32  Aligned_cols=82  Identities=21%  Similarity=0.192  Sum_probs=63.3

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ..-+++|++++.+.+.+.+...++...|  ......+.....+..++|++++.|...+.+..||.......+.++.+...
T Consensus        86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g--~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~d  163 (285)
T KOG4210|consen   86 GSSSTFFVGELSENIEESEDDNFSSEAG--LRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKD  163 (285)
T ss_pred             cccccccccccccchhhccccccchhhc--CcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCc
Confidence            3567899999999999998889999888  44454445545577789999999999999999998544457777776655


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      ....
T Consensus       164 l~~~  167 (285)
T KOG4210|consen  164 LNTR  167 (285)
T ss_pred             cccc
Confidence            5543

>KOG4285|consensus

Probab=92.49  E-value=0.58  Score=37.09  Aligned_cols=70  Identities=9%  Similarity=-0.021  Sum_probs=49.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc-ccEEecc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR-KPMVAYP  149 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~-~l~v~~a  149 (172)
                      .=|-|-++++.-. ..+..+|.+||  .|.+.-      ++.+..|-+|-|.+.-+|++||. .||..|+|. .|-|..+
T Consensus       198 ~WVTVfGFppg~~-s~vL~~F~~cG--~Vvkhv------~~~ngNwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpC  267 (350)
T KOG4285|consen  198 TWVTVFGFPPGQV-SIVLNLFSRCG--EVVKHV------TPSNGNWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPC  267 (350)
T ss_pred             ceEEEeccCccch-hHHHHHHHhhC--eeeeee------cCCCCceEEEEecchhHHHHhhh-hcCeeeccceEEeeeec
Confidence            3455667776544 56778999999  665432      22233489999999999999998 499999986 4556654


Q ss_pred             C
Q psy8001         150 T  150 (172)
Q Consensus       150 ~  150 (172)
                      .
T Consensus       268 t  268 (350)
T KOG4285|consen  268 T  268 (350)
T ss_pred             C
Confidence            3

>KOG2135|consensus

Probab=91.66  E-value=0.11  Score=43.30  Aligned_cols=71  Identities=13%  Similarity=0.084  Sum_probs=54.5

Q ss_pred             eEEEcCCCCCC-CHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          72 NLYVGNLTWWT-TEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        72 ~v~V~nL~~~~-~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      .+-+.-.++.. +.++|-.+|.+||  .|..|-+-+.      .-.|.|+|.+..+|-.|-. .++..|+||-|+|.|-+
T Consensus       374 ~l~lek~~~glnt~a~ln~hfA~fG--~i~n~qv~~~------~~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whn  444 (526)
T KOG2135|consen  374 PLALEKSPFGLNTIADLNPHFAQFG--EIENIQVDYS------SLHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHN  444 (526)
T ss_pred             hhhhhccCCCCchHhhhhhhhhhcC--ccccccccCc------hhhheeeeeccccccchhc-cccceecCceeEEEEec
Confidence            33444445443 3578899999999  8888776443      3478999999999977765 69999999999999998


Q ss_pred             C
Q psy8001         151 R  151 (172)
Q Consensus       151 ~  151 (172)
                      +
T Consensus       445 p  445 (526)
T KOG2135|consen  445 P  445 (526)
T ss_pred             C
Confidence            7

>KOG0804|consensus

Probab=89.35  E-value=2.4  Score=35.52  Aligned_cols=69  Identities=9%  Similarity=0.126  Sum_probs=57.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      ...|.|-.+|-.++--||-.|...+-. .|..++|++|..-  ++=..++.|.+.++|....+.+||..|..
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~-~I~~irivRd~~p--nrymvLIkFr~q~da~~Fy~efNGk~Fn~  142 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIK-QISDIRIVRDGMP--NRYMVLIKFRDQADADTFYEEFNGKQFNS  142 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhh-hhheeEEeecCCC--ceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence            678999999999999999999887653 5889999996522  23358999999999999999999997654

>KOG4660|consensus

Probab=89.21  E-value=0.7  Score=39.39  Aligned_cols=85  Identities=8%  Similarity=0.099  Sum_probs=55.9

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCC--------------------------CeEEEEEEecCCCCCcccEEEEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVP--------------------------DFIDVKFFENASNGQSKGFCTVT  120 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~--------------------------~~~~~~i~~~~~~g~~~g~afv~  120 (172)
                      ....+++.|+|++...+..+|.++....-..                          .-..+.+..|=.+..+.|||||.
T Consensus       358 ~~~Rtt~~i~ni~n~~~~~dl~~Ildge~~rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFIN  437 (549)
T KOG4660|consen  358 RDRRTTVMIKNIPNKYGQLDLLRILDGECPRTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFIN  437 (549)
T ss_pred             ccchhhhhhhccccchhHHHHHHHHhCcCchhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEe
Confidence            3456677778887777766666554322100                          22234444443344568999999


Q ss_pred             eCCHHHHHHHHHHCCCce---eCC-cccEEeccCC
Q psy8001         121 LGSEESMSLVMERLPTLE---LHG-RKPMVAYPTR  151 (172)
Q Consensus       121 f~~~~~a~~al~~l~g~~---l~g-~~l~v~~a~~  151 (172)
                      |-+.+++..+.+++||..   +.+ +...+.||+-
T Consensus       438 m~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArI  472 (549)
T KOG4660|consen  438 MTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARI  472 (549)
T ss_pred             ecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhh
Confidence            999999999999999994   444 3456777764

>smart00596 PRE_C2HC PRE_C2HC domain

Probab=88.55  E-value=0.87  Score=28.05  Aligned_cols=62  Identities=18%  Similarity=0.256  Sum_probs=45.7

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          85 ADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        85 ~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      ++|.+.|...|. .+..++-+..+.++..-..-||+.....+-..   .|+=..|+|++|.|+...
T Consensus         2 ~~I~~~L~~~G~-~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~   63 (69)
T smart00596        2 SQIEEALKDIGF-PVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPH   63 (69)
T ss_pred             HHHHHHHHHcCC-ceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCc
Confidence            467888999996 68888888887666656678888875543332   466678999999998664

>KOG4574|consensus

Probab=86.92  E-value=3.7  Score=37.07  Aligned_cols=72  Identities=17%  Similarity=0.201  Sum_probs=58.2

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee--CCcccEEecc
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL--HGRKPMVAYP  149 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l--~g~~l~v~~a  149 (172)
                      +.++.|..-..+...|..++.+||  .+.....+++-      ..|.|+|.+.+.|-.|+++|+|.++  -|-..+|.+|
T Consensus       300 ~~~~~nn~v~~tSssL~~l~s~yg--~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~a  371 (1007)
T KOG4574|consen  300 KQSLENNAVNLTSSSLATLCSDYG--SVASAWTLRDL------NMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFA  371 (1007)
T ss_pred             hhhhhcccccchHHHHHHHHHhhc--chhhheecccc------cchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEec
Confidence            445566677788888999999999  78777655542      3799999999999999999999954  4677899988


Q ss_pred             CC
Q psy8001         150 TR  151 (172)
Q Consensus       150 ~~  151 (172)
                      +.
T Consensus       372 k~  373 (1007)
T KOG4574|consen  372 KT  373 (1007)
T ss_pred             cc
Confidence            85

>KOG4676|consensus

Probab=85.10  E-value=0.22  Score=40.73  Aligned_cols=71  Identities=10%  Similarity=0.038  Sum_probs=54.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ..+++|++|.-.|...++.+.|..+|  .+...++-    .+-..-+|-++|........|++ ++|.++.-+...+.
T Consensus       151 rRt~~v~sl~~~~~l~e~~e~f~r~G--ev~ya~~a----sk~~s~~c~~sf~~qts~~halr-~~gre~k~qhsr~a  221 (479)
T KOG4676|consen  151 RRTREVQSLISAAILPESGESFERKG--EVSYAHTA----SKSRSSSCSHSFRKQTSSKHALR-SHGRERKRQHSRRA  221 (479)
T ss_pred             Hhhhhhhcchhhhcchhhhhhhhhcc--hhhhhhhh----ccCCCcchhhhHhhhhhHHHHHH-hcchhhhhhhhhhh
Confidence            46799999999999999999999999  66655543    33455688899999888888887 57777664443333

>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth

Probab=84.67  E-value=2.3  Score=26.10  Aligned_cols=63  Identities=13%  Similarity=0.227  Sum_probs=45.8

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccCC
Q psy8001          85 ADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTR  151 (172)
Q Consensus        85 ~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~~  151 (172)
                      ++|.+.|...|- .+.++.-+..+.+...-..-||++....+   ..+.|+=..|++.+|.|+..+.
T Consensus         2 ~~I~~~L~~~G~-~v~~i~~~~~~~~k~pl~mf~veL~p~~~---~k~i~~Ik~l~~~~V~vE~~~k   64 (68)
T PF07530_consen    2 EEIKEELKDQGH-PVRNIHNMHSRNTKKPLNMFFVELEPKPN---NKEIYKIKTLCGQRVKVERPRK   64 (68)
T ss_pred             HHHHHHHHHcCC-ceEEEEccccCCCCCCceEEEEeeccCcc---ccceeehHhhCCeEEEEecCCC
Confidence            567888888885 57788777776566666788888876544   3345666789999999997654

These proteins are possibly involved in RNA binding or single strand DNA binding.

>KOG4483|consensus

Probab=82.10  E-value=4.8  Score=33.33  Aligned_cols=57  Identities=11%  Similarity=0.066  Sum_probs=47.0

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHH
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMER  133 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~  133 (172)
                      -...|-|.++|....-++|-..|..|+. .-..|+++-|.       .+|..|.+...|..||-.
T Consensus       390 lpHVlEIydfp~efkteDll~~f~~yq~-kgfdIkWvDdt-------halaVFss~~~AaeaLt~  446 (528)
T KOG4483|consen  390 LPHVLEIYDFPDEFKTEDLLKAFETYQN-KGFDIKWVDDT-------HALAVFSSVNRAAEALTL  446 (528)
T ss_pred             ccceeEeccCchhhccHHHHHHHHHhhc-CCceeEEeecc-------eeEEeecchHHHHHHhhc
Confidence            3467889999998888999999999983 45667777764       899999999999999873

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	172
3q2s_C	229	Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX Lengt		2e-24
3p5t_L	90	Cfim25-Cfim68 Complex Length = 90		7e-22
3n9u_C	156	Crystal Structure Of The Complex Between The 25 Kda		2e-18

>pdb|3Q2S|C Chain C, Crystal Structure Of Cfim68 RrmCFIM25 COMPLEX Length = 229

Iteration: 1
 Score =  108 bits (270), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 60/153 (39%), Positives = 83/153 (54%), Gaps = 15/153 (9%)
Query: 28  HDDIDLYDDVTLQPFPEHTGRSP-------------AXXXXXXXXXXXXXXXXXXXCNLY 74
           HD IDLYDDV + P   + G +P                                   LY
Sbjct: 15  HDQIDLYDDV-ISP-SANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIALY 72
Query: 75  VGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL 134
           +GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S   +M+ L
Sbjct: 73  IGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLL 132
Query: 135 PTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
           P  ELHG+ P+V    +  L QFE Q+   ++S
Sbjct: 133 PKRELHGQNPVVTPVNKQFLSQFEMQSRKTTQS 165

>pdb|3P5T|L Chain L, Cfim25-Cfim68 Complex Length = 90

Iteration: 1
 Score = 99.8 bits (247), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 42/74 (56%), Positives = 58/74 (78%)
Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S   +M+
Sbjct: 4   LYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMD 63
Query: 133 RLPTLELHGRKPMV 146
            LP  ELHG+ P+V
Sbjct: 64  LLPKRELHGQNPVV 77

>pdb|3N9U|C Chain C, Crystal Structure Of The Complex Between The 25 Kda Subunit And The 59 Kda Subunit (Rrm Domain) Of Human Cleavage Factor Im Length = 156

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 46/100 (46%), Positives = 62/100 (62%), Gaps = 4/100 (4%)
Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           +YVG+ +WWTT+  +   IRSIGV D +++KF EN +NGQSKG+  V + SE S+  ++E
Sbjct: 58  VYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLE 117
Query: 133 RLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRSYR 172
            LP   L+G K  V   TR  L QFEAQ    +R R   R
Sbjct: 118 LLPGKVLNGEKVDVRPATRQNLSQFEAQ----ARKRECVR 153

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	172
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	1e-31
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	4e-30
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	2e-27
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-12
2div_A	99	TRNA selenocysteine associated protein; structural	2e-12
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	9e-12
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	1e-11
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	2e-11
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	4e-11
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	6e-11
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	9e-11
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	1e-10
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	1e-10
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	1e-10
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	2e-10
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	3e-10
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	9e-09
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	1e-05
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	3e-10
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	3e-10
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	4e-10
1x4e_A	85	RNA binding motif, single-stranded interacting pro	4e-10
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	5e-10
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	7e-10
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	1e-09
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	2e-09
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	6e-05
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	2e-09
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	3e-09
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	3e-09
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	3e-09
2dis_A	109	Unnamed protein product; structural genomics, RRM	3e-09
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	4e-09
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	4e-09
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	4e-09
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	2e-07
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	9e-09
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	1e-08
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	3e-04
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	1e-08
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	1e-08
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	2e-08
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	2e-08
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	3e-08
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	2e-08
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	2e-08
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	2e-08
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	2e-08
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	3e-08
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	3e-08
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	3e-08
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	3e-08
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	5e-08
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	5e-08
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	5e-08
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	4e-07
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	6e-08
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	6e-08
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	7e-08
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	7e-08
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	8e-08
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	8e-08
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	9e-08
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	9e-08
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	1e-07
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	1e-07
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	1e-07
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	1e-07
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-07
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	5e-05
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	2e-07
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-07
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	3e-07
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	3e-07
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	3e-07
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	3e-07
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	3e-07
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	4e-05
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	3e-07
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	2e-06
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	4e-07
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	4e-07
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	4e-07
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	5e-07
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	5e-07
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	6e-07
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	6e-07
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	2e-04
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	7e-07
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	1e-06
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	1e-06
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	1e-06
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	1e-06
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	1e-06
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	2e-06
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	2e-06
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	2e-06
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	2e-06
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	2e-06
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	2e-06
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	2e-06
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	3e-06
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	3e-06
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	3e-06
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	9e-04
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	3e-06
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	3e-06
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	3e-06
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	3e-06
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	4e-06
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	5e-06
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	5e-06
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	7e-06
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	7e-06
1x5o_A	114	RNA binding motif, single-stranded interacting pro	8e-06
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	1e-05
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	2e-05
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	2e-05
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	2e-05
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	2e-05
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	2e-05
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	3e-05
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	3e-05
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	4e-05
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	4e-05
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	6e-05
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	3e-04
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	7e-05
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	8e-05
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	1e-04
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	1e-04
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	2e-04
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	2e-04
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	2e-04
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	3e-04
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	4e-04
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	4e-04
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	5e-04
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	5e-04
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	6e-04
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	7e-04
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	7e-04
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	8e-04
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	9e-04

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score =  110 bits (277), Expect = 1e-31
 Identities = 51/148 (34%), Positives = 71/148 (47%), Gaps = 1/148 (0%)

Query: 25  STEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTE 84
             +    +LY      P P     SP          +      +    +YVG+ +WWTT+
Sbjct: 10  GVDLGTENLYFQSMEPPPPVRQEPSPKPNNKTPAILYTYSGLRNRRAAVYVGSFSWWTTD 69

Query: 85  ADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP 144
             +   IRSIGV D +++KF EN +NGQSKG+  V + SE S+  ++E LP   L+G K 
Sbjct: 70  QQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKV 129

Query: 145 MVAYPTRNVLYQFEAQNPLRSRSRRSYR 172
            V   TR  L QFEAQ   +    R  R
Sbjct: 130 DVRPATRQNLSQFEAQ-ARKRECVRVPR 156

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C Length = 229

 Score =  108 bits (271), Expect = 4e-30
 Identities = 59/156 (37%), Positives = 82/156 (52%), Gaps = 13/156 (8%)

Query: 27  EHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSHHHSQATSSSH------------CNLY 74
            HD IDLYDDV + P   +      R                                LY
Sbjct: 14  GHDQIDLYDDV-ISPSANNGDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIALY 72

Query: 75  VGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL 134
           +GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S   +M+ L
Sbjct: 73  IGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLL 132

Query: 135 PTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRS 170
           P  ELHG+ P+V    +  L QFE Q+   ++S + 
Sbjct: 133 PKRELHGQNPVVTPVNKQFLSQFEMQSRKTTQSGQM 168

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C Length = 90

 Score = 97.7 bits (244), Expect = 2e-27
 Identities = 42/79 (53%), Positives = 58/79 (73%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
            LY+GNLTWWTT+ D+++A+ S+GV D +++KFFEN +NGQSKGF  V +GSE S   +M
Sbjct: 3   ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 62

Query: 132 ERLPTLELHGRKPMVAYPT 150
           + LP  ELHG+ P+V    
Sbjct: 63  DLLPKRELHGQNPVVTPSN 81

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

 Score = 59.3 bits (144), Expect = 2e-12
 Identities = 18/94 (19%), Positives = 37/94 (39%), Gaps = 8/94 (8%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
            HHH          + + N+   T    +  A+         +++  ++    Q++GF  
Sbjct: 2   GHHHHHHMD----TIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAF 57

Query: 119 VTLGSEESMSLVMERL----PTLELHGRKPMVAY 148
           V L S    S +++ L    P L++ G+   V +
Sbjct: 58  VQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDF 91

>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 = 58.9 bits (143), Expect = 2e-12
 Identities = 19/86 (22%), Positives = 35/86 (40%), Gaps = 1/86 (1%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           S  +S    +L++G+L  +  E  +S A  ++G    + VK   N   G   G+C V   
Sbjct: 2   SSGSSGMAASLWMGDLEPYMDENFISRAFATMGET-VMSVKIIRNRLTGIPAGYCFVEFA 60

Query: 123 SEESMSLVMERLPTLELHGRKPMVAY 148
              +    + ++    L G  P   +
Sbjct: 61  DLATAEKCLHKINGKPLPGATPAKRF 86

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 57.2 bits (139), Expect = 9e-12
 Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 4/79 (5%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
           + SS  C ++V NL +  T   + D     G   + D+K      NG+SKG   V   S 
Sbjct: 3   SGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKM----ENGKSKGCGVVKFESP 58

Query: 125 ESMSLVMERLPTLELHGRK 143
           E        +  ++L GR+
Sbjct: 59  EVAERACRMMNGMKLSGRE 77

>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 = 57.3 bits (139), Expect = 1e-11
 Identities = 18/90 (20%), Positives = 33/90 (36%), Gaps = 6/90 (6%)

Query: 60  HHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGV------PDFIDVKFFENASNGQS 113
           HHH   + S +  ++V  L    T   ++D  + IG+           +  + +   G+ 
Sbjct: 3   HHHHHHSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKL 62

Query: 114 KGFCTVTLGSEESMSLVMERLPTLELHGRK 143
           KG  TV+     S    ++     E  G  
Sbjct: 63  KGEATVSFDDPPSAKAAIDWFDGKEFSGNP 92

>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 = 57.4 bits (139), Expect = 2e-11
 Identities = 20/111 (18%), Positives = 38/111 (34%), Gaps = 4/111 (3%)

Query: 43  PEHTGRSPARYRHHRYSHHHS-QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFID 101
            +  GR P +++H  +           +   L V NL +  ++AD+ +     G      
Sbjct: 7   GQQMGRDPDKWQHDLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAA 66

Query: 102 VKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRN 152
           V +     +G+S G   V           M++   + L GR   +      
Sbjct: 67  VDYDR---SGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQ 114

>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 = 55.7 bits (135), Expect = 4e-11
 Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 2/89 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           ++A    +C L V  L+ +TTE D+ +     G     DV    +  + +S+GF  V   
Sbjct: 8   NRANPDPNCCLGVFGLSLYTTERDLREVFSKYG--PIADVSIVYDQQSRRSRGFAFVYFE 65

Query: 123 SEESMSLVMERLPTLELHGRKPMVAYPTR 151
           + +      ER   +EL GR+  V+ P+ 
Sbjct: 66  NVDDAKEAKERANGMELDGRRIRVSGPSS 94

>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 = 55.3 bits (134), Expect = 6e-11
 Identities = 18/82 (21%), Positives = 33/82 (40%), Gaps = 2/82 (2%)

Query: 62  HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTL 121
            S   +S    L+VG L++ T E  +       G     +V   ++    +S+GF  VT 
Sbjct: 4   GSSGMASDEGKLFVGGLSFDTNEQSLEQVFSKYG--QISEVVVVKDRETQRSRGFGFVTF 61

Query: 122 GSEESMSLVMERLPTLELHGRK 143
            + +     M  +    + GR+
Sbjct: 62  ENIDDAKDAMMAMNGKSVDGRQ 83

>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 = 55.1 bits (133), Expect = 9e-11
 Identities = 17/88 (19%), Positives = 30/88 (34%), Gaps = 6/88 (6%)

Query: 62  HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGV------PDFIDVKFFENASNGQSKG 115
                 S +  +YV  L    T  D++D  +  GV           +  + +   G+ KG
Sbjct: 7   GDPDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKG 66

Query: 116 FCTVTLGSEESMSLVMERLPTLELHGRK 143
             TV+     +    +E     +  G K
Sbjct: 67  DATVSYEDPPTAKAAVEWFDGKDFQGSK 94

>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 = 56.0 bits (135), Expect = 1e-10
 Identities = 24/100 (24%), Positives = 37/100 (37%), Gaps = 2/100 (2%)

Query: 43  PEHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDV 102
             +   S  R +H R  +   +      C LYVGNL+++TTE  + +     G  D   +
Sbjct: 12  DSYVELSQYRDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSG--DIKKI 69

Query: 103 KFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR 142
               +     + GFC V   S       M  +    L  R
Sbjct: 70  IMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDR 109

>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 = 54.5 bits (132), Expect = 1e-10
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 2/80 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           S   +++   LYVG L     +  +  A    G  D  D++   +    + +GF  V   
Sbjct: 5   SSGMATTKRVLYVGGLAEEVDDKVLHAAFIPFG--DITDIQIPLDYETEKHRGFAFVEFE 62

Query: 123 SEESMSLVMERLPTLELHGR 142
             E  +  ++ +   EL GR
Sbjct: 63  LAEDAAAAIDNMNESELFGR 82

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

 Score = 55.1 bits (133), Expect = 1e-10
 Identities = 16/91 (17%), Positives = 34/91 (37%), Gaps = 6/91 (6%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGV------PDFIDVKFFENASNGQSKGFC 117
           +  +S +  ++V  L    T   ++D  + IG+           +  + +   G+ KG  
Sbjct: 1   EQDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEA 60

Query: 118 TVTLGSEESMSLVMERLPTLELHGRKPMVAY 148
           TV+     S    ++     E  G    V++
Sbjct: 61  TVSFDDPPSAKAAIDWFDGKEFSGNPIKVSF 91

>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 = 54.8 bits (132), Expect = 2e-10
 Identities = 16/98 (16%), Positives = 27/98 (27%), Gaps = 2/98 (2%)

Query: 51  ARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASN 110
            + +                 NL V  +     E  +       G      VK   +   
Sbjct: 23  QQQQQQHIPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYG--PIESVKIVCDRET 80

Query: 111 GQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY 148
            QS+G+  V   S  S    +  L    +  ++  VA 
Sbjct: 81  RQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL 118

>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 = 56.5 bits (137), Expect = 3e-10
 Identities = 13/91 (14%), Positives = 27/91 (29%), Gaps = 9/91 (9%)

Query: 62  HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTL 121
           H++    +   + +  L    T  ++ D +    +               + KG   VTL
Sbjct: 14  HTERQFRNRRKILIRGLPGDVTNQEVHDLLSDYEL---KYCF------VDKYKGTAFVTL 64

Query: 122 GSEESMSLVMERLPTLELHGRKPMVAYPTRN 152
            + E     +       L  R+  V     +
Sbjct: 65  LNGEQAEAAINAFHQSRLRERELSVQLQPTD 95

>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 = 52.3 bits (126), Expect = 9e-09
 Identities = 17/86 (19%), Positives = 27/86 (31%), Gaps = 2/86 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
             +   L V NL    T+    + +R  G           +   GQSKG+       ++S
Sbjct: 92  QPTDALLCVANLPPSLTQQQFEELVRPFG--SLERCFLVYSERTGQSKGYGFAEYMKKDS 149

Query: 127 MSLVMERLPTLELHGRKPMVAYPTRN 152
            +     L    L  R   V +    
Sbjct: 150 AARAKSDLLGKPLGPRTLYVHWTDAG 175

>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 = 43.0 bits (102), Expect = 1e-05
 Identities = 22/102 (21%), Positives = 38/102 (37%), Gaps = 10/102 (9%)

Query: 72  NLYVGNLTWWTTEAD-MSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
            L V  L     + D +  A+ ++  P     +      +GQ KGF  +   + E     
Sbjct: 186 CLCVDRLPPGFNDVDALCRALSAVHSP--TFCQLACG-QDGQLKGFAVLEYETAEMAEEA 242

Query: 131 MERLPTLELHGRKPMVAY-----PTRNVLY-QFEAQNPLRSR 166
            ++   L L G    V++     P R++L     AQ    +R
Sbjct: 243 QQQADGLSLGGSHLRVSFCAPGPPGRSMLAALIAAQATALNR 284

>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 = 53.8 bits (130), Expect = 3e-10
 Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 2/79 (2%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS 123
           Q  S+    LYVG+L +  TE  +       G      ++   ++  G+SKG+  +T   
Sbjct: 20  QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFG--RIESIQLMMDSETGRSKGYGFITFSD 77

Query: 124 EESMSLVMERLPTLELHGR 142
            E     +E+L   EL GR
Sbjct: 78  SECAKKALEQLNGFELAGR 96

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Length = 129

 Score = 54.3 bits (131), Expect = 3e-10
 Identities = 24/103 (23%), Positives = 42/103 (40%), Gaps = 2/103 (1%)

Query: 46  TGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFF 105
              +  +       H  ++A    +C L V  L+ +TTE D+ +     G     DV   
Sbjct: 22  ASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYG--PIADVSIV 79

Query: 106 ENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY 148
            +  + +S+GF  V   + +      ER   +EL GR+  V +
Sbjct: 80  YDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF 122

>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 = 53.0 bits (128), Expect = 4e-10
 Identities = 17/81 (20%), Positives = 30/81 (37%), Gaps = 2/81 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           S   + S   +YV NL +  T  D+       G    + V   ++    +SKG   +   
Sbjct: 9   SGGLAPSKSTVYVSNLPFSLTNNDLYRIFSKYG--KVVKVTIMKDKDTRKSKGVAFILFL 66

Query: 123 SEESMSLVMERLPTLELHGRK 143
            ++S       +   +L GR 
Sbjct: 67  DKDSAQNCTRAINNKQLFGRV 87

>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 = 52.5 bits (127), Expect = 4e-10
 Identities = 16/83 (19%), Positives = 30/83 (36%), Gaps = 2/83 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           SS    LY+  L   TT+ D+    +  G    +  K   + +  + KG+  V   S  +
Sbjct: 2   SSGSSGLYIRGLQPGTTDQDLVKLCQPYG--KIVSTKAILDKTTNKCKGYGFVDFDSPSA 59

Query: 127 MSLVMERLPTLELHGRKPMVAYP 149
               +  L    +  +    + P
Sbjct: 60  AQKAVTALKASGVQAQMAKQSGP 82

>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 = 52.5 bits (127), Expect = 5e-10
 Identities = 17/78 (21%), Positives = 32/78 (41%), Gaps = 2/78 (2%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
           + +++   LYVG L     +  +  A    G  D  D++   +    + +GF  V     
Sbjct: 2   SMATTKRVLYVGGLAEEVDDKVLHAAFIPFG--DITDIQIPLDYETEKHRGFAFVEFELA 59

Query: 125 ESMSLVMERLPTLELHGR 142
           E  +  ++ +   EL GR
Sbjct: 60  EDAAAAIDNMNESELFGR 77

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A Length = 107

 Score = 52.7 bits (127), Expect = 7e-10
 Identities = 20/99 (20%), Positives = 37/99 (37%), Gaps = 5/99 (5%)

Query: 48  RSPARYRHHRYSHHHSQATSSSH-CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFE 106
           + P +++H  +               L V NL +  ++AD+ +     G      V +  
Sbjct: 6   QLPDKWQHDLFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR 65

Query: 107 NASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM 145
              +G+S G   V    +      M++   + L GR PM
Sbjct: 66  ---SGRSLGTADVHFERKADALKAMKQYNGVPLDGR-PM 100

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

 Score = 52.3 bits (126), Expect = 1e-09
 Identities = 17/90 (18%), Positives = 37/90 (41%), Gaps = 3/90 (3%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
           S     +TS     L++  L +  T+ ++ +  ++ G     D++   N + G+ KG   
Sbjct: 6   SGVFRYSTSLEKHKLFISGLPFSCTKEELEEICKAHG--TVKDLRLVTNRA-GKPKGLAY 62

Query: 119 VTLGSEESMSLVMERLPTLELHGRKPMVAY 148
           V   +E   S  + ++  + +      VA 
Sbjct: 63  VEYENESQASQAVMKMDGMTIKENIIKVAI 92

>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 = 53.0 bits (128), Expect = 2e-09
 Identities = 19/84 (22%), Positives = 33/84 (39%), Gaps = 4/84 (4%)

Query: 68  SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESM 127
           +S+ NL V  L    T+ ++    R+IG       +   +   G S G+  V   SE   
Sbjct: 1   ASNTNLIVNYLPQDMTDRELYALFRAIGPI--NTCRIMRDYKTGYSYGYAFVDFTSEMDS 58

Query: 128 SLVMERLPTLELHGR--KPMVAYP 149
              ++ L  + +  +  K   A P
Sbjct: 59  QRAIKVLNGITVRNKRLKVSYARP 82

>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 = 40.6 bits (96), Expect = 6e-05
 Identities = 17/84 (20%), Positives = 27/84 (32%), Gaps = 4/84 (4%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           S    NLYV NL    T+  +       G    +      +   G+ +G   V     E 
Sbjct: 86  SIKDTNLYVTNLPRTITDDQLDTIFGKYG--SIVQKNILRDKLTGRPRGVAFVRYNKREE 143

Query: 127 MSLVMERLPTLELHGR-KPM-VAY 148
               +  L  +   G  +P+ V  
Sbjct: 144 AQEAISALNNVIPEGGSQPLSVRL 167

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 52.1 bits (125), Expect = 2e-09
 Identities = 18/84 (21%), Positives = 33/84 (39%), Gaps = 2/84 (2%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
               S  ++++   LYVG L     +  +  A    G  D  D++   +    + +GF  
Sbjct: 52  GSGGSGGSATTKRVLYVGGLAEEVDDKVLHAAFIPFG--DITDIQIPLDYETEKHRGFAF 109

Query: 119 VTLGSEESMSLVMERLPTLELHGR 142
           V     E  +  ++ +   EL GR
Sbjct: 110 VEFELAEDAAAAIDNMNESELFGR 133

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Length = 116

 Score = 51.2 bits (123), Expect = 3e-09
 Identities = 19/108 (17%), Positives = 36/108 (33%), Gaps = 3/108 (2%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
             +     L++G L   T E  +       G     +V   ++ +  +S+GF  +T  + 
Sbjct: 2   VEADHPGKLFIGGLNRETNEKMLKAVFGKHG--PISEVLLIKDRT-SKSRGFAFITFENP 58

Query: 125 ESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRSYR 172
                  + +    LHG+   V    +        + P  S   RS  
Sbjct: 59  ADAKNAAKDMNGKSLHGKAIKVEQAKKPSFQSGGRRRPPASSRNRSPS 106

>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 = 52.1 bits (125), Expect = 3e-09
 Identities = 24/128 (18%), Positives = 39/128 (30%), Gaps = 7/128 (5%)

Query: 21  GEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTW 80
            E V  ++ + +  D          T        HH               +L V NLT+
Sbjct: 26  AEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHH-----HHMDVEGMTSLKVDNLTY 80

Query: 81  WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH 140
            T+   +       G     DV    +    +S+GF  V    +      M+ +    L 
Sbjct: 81  RTSPDTLRRVFEKYG--RVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLD 138

Query: 141 GRKPMVAY 148
           GR+  V  
Sbjct: 139 GRELRVQM 146

>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 = 50.6 bits (122), Expect = 3e-09
 Identities = 22/76 (28%), Positives = 35/76 (46%), Gaps = 2/76 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           SS    LYVG+L +  TE  +       G     ++   +++  G+SKG+  +T    E 
Sbjct: 2   SSGSSGLYVGSLHFNITEDMLRGIFEPFG--KIDNIVLMKDSDTGRSKGYGFITFSDSEC 59

Query: 127 MSLVMERLPTLELHGR 142
               +E+L   EL GR
Sbjct: 60  ARRALEQLNGFELAGR 75

>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 = 50.9 bits (122), Expect = 3e-09
 Identities = 17/87 (19%), Positives = 42/87 (48%), Gaps = 4/87 (4%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASN-GQSKGFCTVTLGS 123
           + SS +C L++G +       ++ + I  +     +DV  + +A++  +++GF  V   S
Sbjct: 3   SGSSGNCRLFIGGIPKMKKREEILEEIAKVT-EGVLDVIVYASAADKMKNRGFAFVEYES 61

Query: 124 EESMSLVMERL--PTLELHGRKPMVAY 148
             + ++   +L    ++L G +  V +
Sbjct: 62  HRAAAMARRKLMPGRIQLWGHQIAVDW 88

>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 = 50.7 bits (122), Expect = 4e-09
 Identities = 19/84 (22%), Positives = 37/84 (44%), Gaps = 4/84 (4%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           S++  NL++GNL    + A++  AI  +      +     +   G ++ F  V   S E 
Sbjct: 14  STTPFNLFIGNLNPNKSVAELKVAISELFA---KNDLAVVDVRTGTNRKFGYVDFESAED 70

Query: 127 MSLVMERLPTLELHGRKPMVAYPT 150
           +   +E L  L++ G +  +  P 
Sbjct: 71  LEKALE-LTGLKVFGNEIKLEKPK 93

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

 Score = 52.2 bits (125), Expect = 4e-09
 Identities = 19/120 (15%), Positives = 37/120 (30%), Gaps = 4/120 (3%)

Query: 35  DDVTLQPFPEHTGRSPARYRHHRY-SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRS 93
                          P +++H  + S         +   L V NL +  ++AD+ +    
Sbjct: 52  GGRNRPAPYSRPKPLPDKWQHDLFDSGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAE 111

Query: 94  IGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNV 153
            G      V +     +G+S G   V           M++   + L GR   +      +
Sbjct: 112 FGTLKKAAVDYDR---SGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVASQI 168

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

 Score = 52.7 bits (127), Expect = 4e-09
 Identities = 19/88 (21%), Positives = 36/88 (40%), Gaps = 2/88 (2%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS 123
           Q   +    +YVG++ +   E  +  A    G      +    ++   + KGF  V    
Sbjct: 22  QGALAIMSRVYVGSIYYELGEDTIRQAFAPFG--PIKSIDMSWDSVTMKHKGFAFVEYEV 79

Query: 124 EESMSLVMERLPTLELHGRKPMVAYPTR 151
            E+  L +E++ ++ L GR   V  P+ 
Sbjct: 80  PEAAQLALEQMNSVMLGGRNIKVGRPSN 107

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

 Score = 47.7 bits (114), Expect = 2e-07
 Identities = 10/82 (12%), Positives = 29/82 (35%), Gaps = 2/82 (2%)

Query: 62  HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTL 121
                + +   +YV ++    ++ D+     + G           + + G+ KG+  +  
Sbjct: 117 QLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFG--KIKSATLARDPTTGKHKGYGFIEY 174

Query: 122 GSEESMSLVMERLPTLELHGRK 143
              +S    +  +   +L G+ 
Sbjct: 175 EKAQSSQDAVSSMNLFDLGGQY 196

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 50.0 bits (120), Expect = 9e-09
 Identities = 24/99 (24%), Positives = 37/99 (37%), Gaps = 10/99 (10%)

Query: 51  ARYRHHRYS------HHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKF 104
           + + HH  S       H +    S    L+V N+ +   + D+       G    +DV+ 
Sbjct: 4   SHHHHHHSSGLVPRGSHMNTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFG--KILDVEI 61

Query: 105 FENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK 143
             N     SKGF  VT  +        E+L    + GRK
Sbjct: 62  IFN--ERGSKGFGFVTFENSADADRAREKLHGTVVEGRK 98

>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 = 51.0 bits (123), Expect = 1e-08
 Identities = 21/83 (25%), Positives = 29/83 (34%), Gaps = 4/83 (4%)

Query: 69  SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMS 128
           S  NL V  L    T+ +      SIG  +    K   +   GQS G+  V     +   
Sbjct: 1   SKTNLIVNYLPQNMTQEEFRSLFGSIG--EIESCKLVRDKITGQSLGYGFVNYIDPKDAE 58

Query: 129 LVMERLPTLELHGR--KPMVAYP 149
             +  L  L L  +  K   A P
Sbjct: 59  KAINTLNGLRLQTKTIKVSYARP 81

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 38.3 bits (90), Expect = 3e-04
 Identities = 14/84 (16%), Positives = 24/84 (28%), Gaps = 4/84 (4%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           S    NLYV  L    T+ ++       G    I  +   +   G S+G   +       
Sbjct: 85  SIRDANLYVSGLPKTMTQKELEQLFSQYG--RIITSRILVDQVTGVSRGVGFIRFDKRIE 142

Query: 127 MSLVMERL--PTLELHGRKPMVAY 148
               ++ L             V +
Sbjct: 143 AEEAIKGLNGQKPSGATEPITVKF 166

>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 = 49.2 bits (118), Expect = 1e-08
 Identities = 16/80 (20%), Positives = 27/80 (33%), Gaps = 6/80 (7%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS 123
              S     L + NL++  TE  + +             +      NG+SKG+  +   S
Sbjct: 9   STWSGESKTLVLSNLSYSATEETLQEVFEKATFIKVPQNQ------NGKSKGYAFIEFAS 62

Query: 124 EESMSLVMERLPTLELHGRK 143
            E     +      E+ GR 
Sbjct: 63  FEDAKEALNSCNKREIEGRA 82

>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 = 49.2 bits (118), Expect = 1e-08
 Identities = 20/81 (24%), Positives = 33/81 (40%), Gaps = 4/81 (4%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           +  + S+   L+V N+ +   + D+       G    +DV+   N     SKGF  VT  
Sbjct: 8   NSESKSTPKRLHVSNIPFRFRDPDLRQMFGQFG--KILDVEIIFN--ERGSKGFGFVTFE 63

Query: 123 SEESMSLVMERLPTLELHGRK 143
           +        E+L    + GRK
Sbjct: 64  NSADADRAREKLHGTVVEGRK 84

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 48.7 bits (117), Expect = 2e-08
 Identities = 18/76 (23%), Positives = 38/76 (50%), Gaps = 2/76 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
             SH +++VG+L+   T A ++ A    G     D +  ++ + G+SKG+  V+  ++  
Sbjct: 3   LGSHFHVFVGDLSPEITTAAIAAAFAPFG--RISDARVVKDMATGKSKGYGFVSFFNKWD 60

Query: 127 MSLVMERLPTLELHGR 142
               ++++    L GR
Sbjct: 61  AENAIQQMGGQWLGGR 76

>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 = 50.3 bits (121), Expect = 2e-08
 Identities = 16/92 (17%), Positives = 31/92 (33%), Gaps = 7/92 (7%)

Query: 57  RYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGF 116
                       +   L   NL++  TE ++ +           +++      +G+SKG 
Sbjct: 86  EKPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDAL-----EIRLVSQ--DGKSKGI 138

Query: 117 CTVTLGSEESMSLVMERLPTLELHGRKPMVAY 148
             +   SE      +E     E+ GR   + Y
Sbjct: 139 AYIEFKSEADAEKNLEEKQGAEIDGRSVSLYY 170

>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 = 49.5 bits (119), Expect = 3e-08
 Identities = 22/93 (23%), Positives = 41/93 (44%), Gaps = 4/93 (4%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
           SH    + S++  NL++GNL    + A++  AI  +      D+   +    G ++ F  
Sbjct: 2   SHMVEGSESTTPFNLFIGNLNPNKSVAELKVAISELFAK--NDLAVVDVR-TGTNRKFGY 58

Query: 119 VTLGSEESMSLVMERLPTLELHGRKPMVAYPTR 151
           V   S E +   +E L  L++ G +  +  P  
Sbjct: 59  VDFESAEDLEKALE-LTGLKVFGNEIKLEKPKG 90

>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 = 48.8 bits (117), Expect = 2e-08
 Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 2/79 (2%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
           A   S  +++VGN+ +  TE  + D    +G    +  +   +   G+ KG+       +
Sbjct: 3   AVDRSLRSVFVGNIPYEATEEQLKDIFSEVG--PVVSFRLVYDRETGKPKGYGFCEYQDQ 60

Query: 125 ESMSLVMERLPTLELHGRK 143
           E+    M  L   E  GR 
Sbjct: 61  ETALSAMRNLNGREFSGRA 79

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 48.8 bits (117), Expect = 2e-08
 Identities = 18/113 (15%), Positives = 33/113 (29%), Gaps = 5/113 (4%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
               +         ++V NL +      + +     G    +     E+  +G+S+G  T
Sbjct: 4   GSSGALQAGRLGSTVFVANLDYKVGWKKLKEVFSMAG--VVVRADILEDK-DGKSRGIGT 60

Query: 119 VTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQ--FEAQNPLRSRSRR 169
           VT          +       L  R   V    R +     F  + P +S    
Sbjct: 61  VTFEQSIEAVQAISMFNGQLLFDRPMHVKMDERALPKGDFFPPERPQQSGPSS 113

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Length = 115

 Score = 48.9 bits (117), Expect = 2e-08
 Identities = 18/80 (22%), Positives = 40/80 (50%), Gaps = 2/80 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
            +  +S+H +++VG+L+   T  D+  A    G     D +  ++ + G+SKG+  V+  
Sbjct: 8   QKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFG--RISDARVVKDMATGKSKGYGFVSFF 65

Query: 123 SEESMSLVMERLPTLELHGR 142
           ++      ++++    L GR
Sbjct: 66  NKWDAENAIQQMGGQWLGGR 85

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

 Score = 49.4 bits (118), Expect = 2e-08
 Identities = 23/136 (16%), Positives = 39/136 (28%), Gaps = 19/136 (13%)

Query: 41  PFPEHTGRSPARYRH----HRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGV 96
             P  +  +             S+           +L V NLT+ T+   +       G 
Sbjct: 14  LVPRGSHMASMTGGQQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYG- 72

Query: 97  PDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQ 156
               DV    +    +S+GF  V    +      M+ +    L GR+  V          
Sbjct: 73  -RVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQ--------- 122

Query: 157 FEAQNPLRSRSRRSYR 172
             A+     R   S+ 
Sbjct: 123 -MAR---YGRPPDSHH 134

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 108

 Score = 48.6 bits (116), Expect = 3e-08
 Identities = 21/116 (18%), Positives = 36/116 (31%), Gaps = 12/116 (10%)

Query: 57  RYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGF 116
                    +  S   + V  L    +  D+ D +R  G   + DV            G 
Sbjct: 2   SSGSSGGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVY---------RDGT 52

Query: 117 CTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRSYR 172
             V    +E M+  + +L   +    +   AY     +     ++P   RSR S  
Sbjct: 53  GVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIR---VKVDGPRSPSYGRSRSSGP 105

>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 = 48.0 bits (115), Expect = 3e-08
 Identities = 16/77 (20%), Positives = 30/77 (38%), Gaps = 7/77 (9%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
            L   NL++  TE ++ +           +++      +G+SKG   +   SE      +
Sbjct: 18  TLLAKNLSFNITEDELKEVFEDAL-----EIRLVSQ--DGKSKGIAYIEFKSEADAEKNL 70

Query: 132 ERLPTLELHGRKPMVAY 148
           E     E+ GR   + Y
Sbjct: 71  EEKQGAEIDGRSVSLYY 87

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

 Score = 48.5 bits (116), Expect = 3e-08
 Identities = 11/97 (11%), Positives = 24/97 (24%), Gaps = 2/97 (2%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
            +    L     E  + D  R  G  +  +V+   +    +  G   V   S       +
Sbjct: 8   EVTFARLNDNVRETFLKDMCRKYG--EVEEVEILLHPRTRKHLGLARVLFTSTRGAKETV 65

Query: 132 ERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSR 168
           + L    + G         +        +  +     
Sbjct: 66  KNLHLTSVMGNIIHAQLDIKGQQRMKYYELIVNGSYT 102

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 102

 Score = 48.0 bits (115), Expect = 3e-08
 Identities = 21/82 (25%), Positives = 31/82 (37%), Gaps = 5/82 (6%)

Query: 62  HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTL 121
              A S     L+V  L+  TTE  + ++         +  +   +   G SKGF  V  
Sbjct: 7   GPNARSQPSKTLFVKGLSEDTTEETLKESFDGS-----VRARIVTDRETGSSKGFGFVDF 61

Query: 122 GSEESMSLVMERLPTLELHGRK 143
            SEE      E +   E+ G K
Sbjct: 62  NSEEDAKAAKEAMEDGEIDGNK 83

>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 = 47.6 bits (114), Expect = 5e-08
 Identities = 20/88 (22%), Positives = 29/88 (32%), Gaps = 5/88 (5%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFF---ENASNGQSKGFCTVTLGS 123
           SS    L++ NL + TTE  +      +G               A    S GF  V    
Sbjct: 2   SSGSSGLFIKNLNFSTTEETLKGVFSKVG--AIKSCTISKKKNKAGVLLSMGFGFVEYKK 59

Query: 124 EESMSLVMERLPTLELHGRKPMVAYPTR 151
            E     +++L    + G K  V    R
Sbjct: 60  PEQAQKALKQLQGHTVDGHKLEVRISER 87

>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 = 47.7 bits (114), Expect = 5e-08
 Identities = 16/87 (18%), Positives = 27/87 (31%), Gaps = 7/87 (8%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
           S   S         L++G +     E D+       G     ++   ++   G  KG   
Sbjct: 2   SSGSSGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFG--KIYELTVLKDRFTGMHKGCAF 59

Query: 119 VTLGSEESMSLVMERLPTLELHGRKPM 145
           +T    ES            LH +K +
Sbjct: 60  LTYCERESALKAQS-----ALHEQKTL 81

>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 = 50.0 bits (120), Expect = 5e-08
 Identities = 14/82 (17%), Positives = 35/82 (42%), Gaps = 2/82 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
             + C L++ N     T+ ++ D ++ I     + ++   +     S+ F  + + S+E 
Sbjct: 114 HLTECTLWMTNFPPSYTQRNIRDLLQDIN-VVALSIRL-PSLRFNTSRRFAYIDVTSKED 171

Query: 127 MSLVMERLPTLELHGRKPMVAY 148
               +E+L  L++ G   +   
Sbjct: 172 ARYCVEKLNGLKIEGYTLVTKV 193

>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 = 47.7 bits (114), Expect = 4e-07
 Identities = 13/107 (12%), Positives = 35/107 (32%), Gaps = 5/107 (4%)

Query: 49  SPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENA 108
           SPA         + +   +     + V NL     +  +    +  G    I V   ++ 
Sbjct: 20  SPAAAGLTSKKANEALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCG--PIIHVDVADS- 76

Query: 109 SNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLY 155
              ++  F  +     +     + +   + +   + +V++ T   L+
Sbjct: 77  -LKKNFRFARIEFARYDGALAAITKTHKV-VGQNEIIVSHLTECTLW 121

>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 = 47.7 bits (114), Expect = 6e-08
 Identities = 22/104 (21%), Positives = 39/104 (37%), Gaps = 8/104 (7%)

Query: 43  PEHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDV 102
              +G+SP R      S     A +     ++   L       D+ D   ++G     DV
Sbjct: 3   SGSSGKSPVREPVDNLSPEERDART-----VFCMQLAARIRPRDLEDFFSAVG--KVRDV 55

Query: 103 KFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV 146
           +   + ++ +SKG   V     +S+ L +  L    L G   +V
Sbjct: 56  RIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIV 98

>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 = 47.6 bits (114), Expect = 6e-08
 Identities = 15/76 (19%), Positives = 30/76 (39%), Gaps = 2/76 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           +  +  + V NL+  T E D+ +  R  G      +   ++ + GQSKGF  ++    E 
Sbjct: 12  ADDNATIRVTNLSEDTRETDLQELFRPFG--SISRIYLAKDKTTGQSKGFAFISFHRRED 69

Query: 127 MSLVMERLPTLELHGR 142
            +  +  +        
Sbjct: 70  AARAIAGVSGFGYDHL 85

>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 = 47.2 bits (113), Expect = 7e-08
 Identities = 17/72 (23%), Positives = 34/72 (47%), Gaps = 2/72 (2%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
             +Y+G++ +  TE  + D   ++G    I++K   +   G+SKG+  +     ES +  
Sbjct: 3   RVVYLGSIPYDQTEEQILDLCSNVGPV--INLKMMFDPQTGRSKGYAFIEFRDLESSASA 60

Query: 131 MERLPTLELHGR 142
           +  L   +L  R
Sbjct: 61  VRNLNGYQLGSR 72

>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 = 46.8 bits (112), Expect = 7e-08
 Identities = 14/76 (18%), Positives = 31/76 (40%), Gaps = 1/76 (1%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           S     +++G LT   T+  + +   + G    ID+   E      SKG+  V   + + 
Sbjct: 1   SMKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMP-VERMHPHLSKGYAYVEFENPDE 59

Query: 127 MSLVMERLPTLELHGR 142
               ++ +   ++ G+
Sbjct: 60  AEKALKHMDGGQIDGQ 75

>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 = 47.3 bits (113), Expect = 8e-08
 Identities = 14/76 (18%), Positives = 29/76 (38%), Gaps = 3/76 (3%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
             LY+ NL+   TE D+          +            G+ +G   +T  ++E     
Sbjct: 26  KVLYLKNLSPRVTERDLVSLFARFQ--EKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQA 83

Query: 131 MERLPTLELHGRKPMV 146
           +  +   +L+G+  +V
Sbjct: 84  LHLVNGYKLYGK-ILV 98

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Length = 118

 Score = 47.4 bits (113), Expect = 8e-08
 Identities = 17/86 (19%), Positives = 36/86 (41%), Gaps = 2/86 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
            Q      CNL++ +L    T+ D++      G  + I  K F +     SK F  V+  
Sbjct: 33  KQIEGPEGCNLFIYHLPQEFTDTDLASTFLPFG--NVISAKVFIDKQTSLSKCFGFVSFD 90

Query: 123 SEESMSLVMERLPTLELHGRKPMVAY 148
           + +S  + ++ +   ++  ++  V  
Sbjct: 91  NPDSAQVAIKAMNGFQVGTKRLKVQL 116

>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 = 46.8 bits (112), Expect = 9e-08
 Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
            ++GNL +  TE  + +  R + +      +   N    + KGF        +S+   + 
Sbjct: 22  AFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSN--PERLKGFGYAEFEDLDSLLSALS 79

Query: 133 RLPTLELHGRK 143
            L    L  R+
Sbjct: 80  -LNEESLGNRR 89

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 47.1 bits (112), Expect = 9e-08
 Identities = 20/100 (20%), Positives = 30/100 (30%), Gaps = 11/100 (11%)

Query: 49  SPARYRHHRYSHH----HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIG-VPDFIDVK 103
           S   + HH         H     +    + + NL    +  D+ D  R       F  V 
Sbjct: 3   SSHHHHHHSSGLVPRGSHMSKLPAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVN 62

Query: 104 FFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK 143
                      G   +   SEE +   +ERL  +E  G  
Sbjct: 63  T------RDFDGTGALEFPSEEILVEALERLNNIEFRGSV 96

>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 = 46.9 bits (112), Expect = 1e-07
 Identities = 18/85 (21%), Positives = 31/85 (36%), Gaps = 15/85 (17%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDA------IRSIGVPDFIDVKFFENASNGQSKGFC 117
            A   +   ++VGNL     E  + +       +  + +    D         G+ K F 
Sbjct: 10  PAQEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTIC--KD-------REGKPKSFG 60

Query: 118 TVTLGSEESMSLVMERLPTLELHGR 142
            V     ES+S  +  L  + L+GR
Sbjct: 61  FVCFKHPESVSYAIALLNGIRLYGR 85

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Length = 90

 Score = 46.4 bits (111), Expect = 1e-07
 Identities = 23/101 (22%), Positives = 36/101 (35%), Gaps = 14/101 (13%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           N+YVGNL +  T   + +     G     +VK   +    + KGF  V +  E      +
Sbjct: 3   NIYVGNLVYSATSEQVKELFSQFG--KVFNVKLIYDRETKKPKGFGFVEMQEESVSE-AI 59

Query: 132 ERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRSYR 172
            +L   +  GR   V           EA  P +S     + 
Sbjct: 60  AKLDNTDFMGRTIRVT----------EAN-PKKSLEHHHHH 89

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Length = 143

 Score = 47.5 bits (113), Expect = 1e-07
 Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 11/85 (12%)

Query: 71  CNLYVGNLTWWTTEADMSDA------IRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
           C +YV NL     E D+           S       D++  +    G+ KG   + L +E
Sbjct: 46  CRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKE---GRMKGQAFIGLPNE 102

Query: 125 ESMSLVMERLPTLELHGRKPM-VAY 148
           ++ +  ++      L G KPM V +
Sbjct: 103 KAAAKALKEANGYVLFG-KPMVVQF 126

>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 = 46.4 bits (111), Expect = 1e-07
 Identities = 17/80 (21%), Positives = 22/80 (27%), Gaps = 2/80 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           S         L V NLT+ T+   +       G     DV           +GF  V   
Sbjct: 6   SGPDVDGMITLKVDNLTYRTSPDSLRRVFEKYG--RVGDVYIPREPHTKAPRGFAFVRFH 63

Query: 123 SEESMSLVMERLPTLELHGR 142
                      +   EL GR
Sbjct: 64  DRRDAQDAEAAMDGAELDGR 83

>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 = 47.5 bits (114), Expect = 2e-07
 Identities = 17/94 (18%), Positives = 42/94 (44%), Gaps = 2/94 (2%)

Query: 58  YSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFC 117
           ++    Q++S    NL+VG+L     +  + +A +      ++      +   G S+G+ 
Sbjct: 75  WAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFP--SYLSGHVMWDMQTGSSRGYG 132

Query: 118 TVTLGSEESMSLVMERLPTLELHGRKPMVAYPTR 151
            V+  S++     M+ +   +L+GR   + +  +
Sbjct: 133 FVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAAK 166

>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 = 40.6 bits (96), Expect = 5e-05
 Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 3/70 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LYVGNL    TE  +    +  G     ++K   +  N ++  +  V        ++ ++
Sbjct: 3   LYVGNLDKAITEDILKQYFQVGGPI--ANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQ 59

Query: 133 RLPTLELHGR 142
            L   ++   
Sbjct: 60  TLNGKQIENN 69

>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 = 46.1 bits (110), Expect = 2e-07
 Identities = 17/78 (21%), Positives = 32/78 (41%), Gaps = 2/78 (2%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
           + SS    L+V NL++ ++E D+     + G     ++ +  ++   + KGF  VT    
Sbjct: 3   SGSSGSGRLFVRNLSYTSSEEDLEKLFSAYG--PLSELHYPIDSLTKKPKGFAFVTFMFP 60

Query: 125 ESMSLVMERLPTLELHGR 142
           E        +      GR
Sbjct: 61  EHAVKAYAEVDGQVFQGR 78

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 45.6 bits (109), Expect = 2e-07
 Identities = 15/71 (21%), Positives = 33/71 (46%), Gaps = 2/71 (2%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           NL+VG+L     +  + +A +      ++      +   G S+G+  V+  S++     M
Sbjct: 3   NLFVGDLNVNVDDETLRNAFKDFP--SYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAM 60

Query: 132 ERLPTLELHGR 142
           + +   +L+GR
Sbjct: 61  DSMQGQDLNGR 71

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

 Score = 45.7 bits (109), Expect = 3e-07
 Identities = 16/71 (22%), Positives = 28/71 (39%), Gaps = 4/71 (5%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
            YVGNL + T + D+    + + +     V+   +    + KGFC V     +S+   + 
Sbjct: 18  AYVGNLPFNTVQGDIDAIFKDLSI---RSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALT 74

Query: 133 RLPTLELHGRK 143
                 L  R 
Sbjct: 75  -YDGALLGDRS 84

>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 = 45.7 bits (109), Expect = 3e-07
 Identities = 15/78 (19%), Positives = 34/78 (43%), Gaps = 2/78 (2%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
           +  +    +YVG L    +E  + +     G    ++    ++   GQ +G+  V   SE
Sbjct: 10  SERNQDATVYVGGLDEKVSEPLLWELFLQAG--PVVNTHMPKDRVTGQHQGYGFVEFLSE 67

Query: 125 ESMSLVMERLPTLELHGR 142
           E     ++ +  ++L+G+
Sbjct: 68  EDADYAIKIMDMIKLYGK 85

>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 = 45.8 bits (109), Expect = 3e-07
 Identities = 15/90 (16%), Positives = 35/90 (38%), Gaps = 8/90 (8%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
           +  +    +++ NL++ + E  + + ++  G  D   V+   +     SKG       ++
Sbjct: 10  SDVTEGKTVFIRNLSFDSEEEALGEVLQQFG--DLKYVRVVLHPDTEHSKGCAFAQFMTQ 67

Query: 125 ESMSLVMERLPT------LELHGRKPMVAY 148
           E+    +           L+L GR+  V  
Sbjct: 68  EAAQKCLAAASLEAEGGGLKLDGRQLKVDL 97

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A Length = 115

 Score = 45.8 bits (109), Expect = 3e-07
 Identities = 15/86 (17%), Positives = 32/86 (37%), Gaps = 2/86 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           SQ       NL++ +L     + D+       G  + +  K F +     SK F  V+  
Sbjct: 18  SQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFG--NVVSAKVFIDKQTNLSKCFGFVSYD 75

Query: 123 SEESMSLVMERLPTLELHGRKPMVAY 148
           +  S    ++ +   ++  ++  V  
Sbjct: 76  NPVSAQAAIQSMNGFQIGMKRLKVQL 101

>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 = 46.8 bits (112), Expect = 3e-07
 Identities = 13/82 (15%), Positives = 29/82 (35%), Gaps = 2/82 (2%)

Query: 62  HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTL 121
           H          L++G L  +  +  + + + S G          ++++ G SKG+     
Sbjct: 86  HDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFG--PLKAFNLVKDSATGLSKGYAFCEY 143

Query: 122 GSEESMSLVMERLPTLELHGRK 143
                    +  L  ++L  +K
Sbjct: 144 VDINVTDQAIAGLNGMQLGDKK 165

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

 Score = 41.1 bits (97), Expect = 4e-05
 Identities = 14/63 (22%), Positives = 21/63 (33%), Gaps = 3/63 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFE---NASNGQSKGFCTVTLGSEESMSL 129
           LYVGN+ +  TE  M D   +      +              Q K F  +   S +  + 
Sbjct: 7   LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQ 66

Query: 130 VME 132
            M 
Sbjct: 67  AMA 69

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 46.9 bits (112), Expect = 3e-07
 Identities = 16/110 (14%), Positives = 35/110 (31%), Gaps = 2/110 (1%)

Query: 41  PFPEHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFI 100
           P         +           S     S   L++G L  +  +  + + + S G     
Sbjct: 85  PHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFG--PLK 142

Query: 101 DVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT 150
                ++++ G SKG+              +  L  ++L  +K +V   +
Sbjct: 143 AFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS 192

>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 = 44.6 bits (106), Expect = 2e-06
 Identities = 18/95 (18%), Positives = 30/95 (31%), Gaps = 4/95 (4%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFE---NASNGQSKGFCTVTLGSEESM 127
             LYVGN+ +  TE  M D   +      +              Q K F  +   S +  
Sbjct: 5   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 64

Query: 128 SLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNP 162
           +  M     +   G+   +  P         ++NP
Sbjct: 65  TQAMA-FDGIIFQGQSLKIRRPHDYQPLPGMSENP 98

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 96

 Score = 45.3 bits (108), Expect = 4e-07
 Identities = 19/86 (22%), Positives = 34/86 (39%), Gaps = 3/86 (3%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIG-VPDFIDVKFFENASNGQSKGFCTVTLGSEE 125
           SS    +++GNL     E  + D   + G +      K   +   G SKG+  +   S +
Sbjct: 2   SSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQ--TPKIMRDPDTGNSKGYAFINFASFD 59

Query: 126 SMSLVMERLPTLELHGRKPMVAYPTR 151
           +    +E +    L  R   V+Y  +
Sbjct: 60  ASDAAIEAMNGQYLCNRPITVSYAFK 85

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A Length = 115

 Score = 45.6 bits (108), Expect = 4e-07
 Identities = 21/107 (19%), Positives = 36/107 (33%), Gaps = 12/107 (11%)

Query: 66  TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEE 125
           +  S   + V  L    +  D+ D +R  G   + DV            G   V    +E
Sbjct: 12  SRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADV---------YRDGTGVVEFVRKE 62

Query: 126 SMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRSYR 172
            M+  + +L   +    +   AY     +     ++P   RSR   R
Sbjct: 63  DMTYAVRKLDNTKFRSHEGETAYIR---VKVDGPRSPSYGRSRSRSR 106

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 44.9 bits (107), Expect = 4e-07
 Identities = 20/107 (18%), Positives = 36/107 (33%), Gaps = 20/107 (18%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
           + SS    L++GNL    TE ++       G     D+           K +  V +  +
Sbjct: 3   SGSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII----------KNYGFVHIEDK 52

Query: 125 ESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRSY 171
            +    +  L   +LHG    V            ++N  ++ S  S 
Sbjct: 53  TAAEDAIRNLHHYKLHGVNINVE----------ASKNKSKASSGPSS 89

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 45.4 bits (108), Expect = 5e-07
 Identities = 18/85 (21%), Positives = 34/85 (40%), Gaps = 3/85 (3%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
           S  H     ++   ++VG L + TT+A +       G  D  +     +   G+S+G+  
Sbjct: 6   SGMHGSQKDTTFTKIFVGGLPYHTTDASLRKYFEGFG--DIEEAVVITDRQTGKSRGYGF 63

Query: 119 VTLGSEESMSLVMERLPTLELHGRK 143
           VT+    +     +      + GRK
Sbjct: 64  VTMADRAAAERACKDPNP-IIDGRK 87

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

 Score = 45.0 bits (107), Expect = 5e-07
 Identities = 17/80 (21%), Positives = 32/80 (40%), Gaps = 8/80 (10%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS 123
           ++        Y+GN+  + TEAD+    ++ G    +D K +        KG C +   +
Sbjct: 21  RSAPPRVTTAYIGNIPHFATEADLIPLFQNFG--FILDFKHY------PEKGCCFIKYDT 72

Query: 124 EESMSLVMERLPTLELHGRK 143
            E  ++ +  L      GR 
Sbjct: 73  HEQAAVCIVALANFPFQGRN 92

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 44.9 bits (107), Expect = 6e-07
 Identities = 17/78 (21%), Positives = 29/78 (37%), Gaps = 2/78 (2%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
             S     L+V  +    TE D+ D     G  +  ++    +   G  KG+  V   + 
Sbjct: 18  QRSVEGWILFVTGVHEEATEEDIHDKFAEYG--EIKNIHLNLDRRTGYLKGYTLVEYETY 75

Query: 125 ESMSLVMERLPTLELHGR 142
           +     ME L   +L G+
Sbjct: 76  KEAQAAMEGLNGQDLMGQ 93

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 46.5 bits (111), Expect = 6e-07
 Identities = 16/94 (17%), Positives = 35/94 (37%), Gaps = 2/94 (2%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
              +  A S    +LYVG+L    TEA + +     G    + ++   +    +S G+  
Sbjct: 4   GSMNPSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAG--PILSIRVCRDMITRRSLGYAY 61

Query: 119 VTLGSEESMSLVMERLPTLELHGRKPMVAYPTRN 152
           V           ++ +    + G+   + +  R+
Sbjct: 62  VNFQQPADAERALDTMNFDVIKGKPVRIMWSQRD 95

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 39.2 bits (92), Expect = 2e-04
 Identities = 18/94 (19%), Positives = 36/94 (38%), Gaps = 4/94 (4%)

Query: 58  YSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFC 117
           +S        S   N+++ NL        + D   + G  + +  K   +     SKG+ 
Sbjct: 91  WSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFG--NILSCKVVCD--ENGSKGYG 146

Query: 118 TVTLGSEESMSLVMERLPTLELHGRKPMVAYPTR 151
            V   ++E+    +E++  + L+ RK  V     
Sbjct: 147 FVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKS 180

>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 = 44.2 bits (105), Expect = 7e-07
 Identities = 20/80 (25%), Positives = 31/80 (38%), Gaps = 10/80 (12%)

Query: 65  ATSSSHCN-LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS 123
           ++ SS  N LY+GNL+   T  D+        +P    V            G+  V    
Sbjct: 2   SSGSSGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQV--------LLKSGYAFVDYPD 53

Query: 124 EESMSLVMERL-PTLELHGR 142
           +      +E L   +ELHG+
Sbjct: 54  QNWAIRAIETLSGKVELHGK 73

>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 = 44.2 bits (105), Expect = 1e-06
 Identities = 13/71 (18%), Positives = 27/71 (38%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
            ++GNL +  TE  + +  R + +      +   N    + KGF        +S+   + 
Sbjct: 18  AFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSN--PERLKGFGYAEFEDLDSLLSALS 75

Query: 133 RLPTLELHGRK 143
            L    L  ++
Sbjct: 76  -LNEESLGNKR 85

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 44.7 bits (106), Expect = 1e-06
 Identities = 14/72 (19%), Positives = 28/72 (38%), Gaps = 3/72 (4%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           ++YVGN+ + +T  D+     S G      +    +  +G  KG+  +      S+   +
Sbjct: 38  SVYVGNVDYGSTAQDLEAHFSSCG--SINRITILCDKFSGHPKGYAYIEFAERNSVDAAV 95

Query: 132 ERLPTLELHGRK 143
             +      GR 
Sbjct: 96  A-MDETVFRGRT 106

>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 = 43.8 bits (104), Expect = 1e-06
 Identities = 18/80 (22%), Positives = 30/80 (37%), Gaps = 8/80 (10%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS 123
           + T +    L+VGNL    TE +M       G     +V         + KGF  + L +
Sbjct: 9   EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYG--KAGEVFIH------KDKGFGFIRLET 60

Query: 124 EESMSLVMERLPTLELHGRK 143
                +    L  + L G++
Sbjct: 61  RTLAEIAKVELDNMPLRGKQ 80

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Length = 89

 Score = 43.7 bits (104), Expect = 1e-06
 Identities = 16/72 (22%), Positives = 29/72 (40%), Gaps = 3/72 (4%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           ++YVGN+ +  T  ++       G      V    +  +G  KGF  +    +ES+   +
Sbjct: 8   SIYVGNVDYGATAEELEAHFHGCG--SVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65

Query: 132 ERLPTLELHGRK 143
             L      GR+
Sbjct: 66  A-LDESLFRGRQ 76

>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 = 43.8 bits (104), Expect = 1e-06
 Identities = 12/83 (14%), Positives = 31/83 (37%), Gaps = 4/83 (4%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKF-FENASNGQSKGFCTVTL 121
                 +   + V N+ +   + ++ +   + G  +   V+   +    G  +GF  V  
Sbjct: 8   QVPKKQTTSKILVRNIPFQANQREIRELFSTFG--ELKTVRLPKKMTGTGAHRGFGFVDF 65

Query: 122 GSEESMSLVMERLP-TLELHGRK 143
            +++        L  +  L+GR+
Sbjct: 66  ITKQDAKKAFNALCHSTHLYGRR 88

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 43.7 bits (104), Expect = 2e-06
 Identities = 21/88 (23%), Positives = 30/88 (34%), Gaps = 4/88 (4%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS 123
           + T     NLYV NL     +  +  A    G       K       G+SKGF  V   S
Sbjct: 9   RITRYQVVNLYVKNLDDGIDDERLRKAFSPFG--TITSAKVMME--GGRSKGFGFVCFSS 64

Query: 124 EESMSLVMERLPTLELHGRKPMVAYPTR 151
            E  +  +  +    +  +   VA   R
Sbjct: 65  PEEATKAVTEMNGRIVATKPLYVALAQR 92

>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 = 43.9 bits (104), Expect = 2e-06
 Identities = 22/103 (21%), Positives = 36/103 (34%), Gaps = 7/103 (6%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
            L+V  +    TE D+ D     G  +  ++    +   G  KG+  V   + +     M
Sbjct: 24  ILFVTGVHEEATEEDIHDKFAEYG--EIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAM 81

Query: 132 ERLPTLELHGRKPMV--AYPTRNVLYQFEAQNPLRSRSRRSYR 172
           E L   +L G+   V   +           +   R RSR   R
Sbjct: 82  EGLNGQDLMGQPISVDWCFVRGP---PKGKRRGGRRRSRSPDR 121

>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 = 44.1 bits (104), Expect = 2e-06
 Identities = 20/128 (15%), Positives = 45/128 (35%), Gaps = 8/128 (6%)

Query: 43  PEHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDV 102
              +G+SP+  +  R     S++   +   +Y+  L +      + D  + + + +   +
Sbjct: 3   SGSSGKSPSGQKRSR-----SRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVE-DSI 56

Query: 103 KFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNP 162
                  NG++ G   V   +E      + R     +  R   V   T+  + +      
Sbjct: 57  YIAYGP-NGKATGEGFVEFRNEADYKAALCR-HKQYMGNRFIQVHPITKKGMLEKIDMIR 114

Query: 163 LRSRSRRS 170
            R +S  S
Sbjct: 115 KRLQSGPS 122

>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 = 44.4 bits (105), Expect = 2e-06
 Identities = 15/100 (15%), Positives = 30/100 (30%), Gaps = 2/100 (2%)

Query: 44  EHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVK 103
           E                      S     L+V ++     E ++ +     G  +  ++ 
Sbjct: 46  EAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYG--EIKNIH 103

Query: 104 FFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK 143
              +   G SKG+  V   + +      E L   E+ G+ 
Sbjct: 104 LNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQT 143

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

 Score = 43.2 bits (102), Expect = 2e-06
 Identities = 13/75 (17%), Positives = 26/75 (34%), Gaps = 4/75 (5%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           ++Y+       T  D+ + +   G    I ++   +      KG   V   S ES    +
Sbjct: 13  SVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH---KAFKGSIFVVFDSIESAKKFV 69

Query: 132 ERLPTLELHGRKPMV 146
           E  P  +      ++
Sbjct: 70  E-TPGQKYKETDLLI 83

>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 = 43.6 bits (103), Expect = 2e-06
 Identities = 22/111 (19%), Positives = 43/111 (38%), Gaps = 3/111 (2%)

Query: 60  HHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTV 119
                  +S+    ++ N+ +  T+ D+   +  I V +   V    + +NGQ  G   V
Sbjct: 5   SSGEGDVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDE-NAVHVLVD-NNGQGLGQALV 62

Query: 120 TLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRS 170
              +E+            +L+GR+  V   T   + + E   P + +S  S
Sbjct: 63  QFKNEDDARKSERLHRK-KLNGREAFVHVVTLEDMREIEKNPPAQGKSGPS 112

>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 = 43.0 bits (102), Expect = 2e-06
 Identities = 15/81 (18%), Positives = 30/81 (37%), Gaps = 10/81 (12%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           S  +S +   ++VGN++   T  ++       G     DV           K +  V + 
Sbjct: 2   SSGSSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVV----------KDYAFVHME 51

Query: 123 SEESMSLVMERLPTLELHGRK 143
            E      + +L   E+ G++
Sbjct: 52  KEADAKAAIAQLNGKEVKGKR 72

>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 = 43.1 bits (102), Expect = 3e-06
 Identities = 13/78 (16%), Positives = 27/78 (34%), Gaps = 4/78 (5%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIG-VPDFIDVKFFENASNGQSKGFCTVTLGSEE 125
                 + V N+ +  +  ++ D       +P  + +K+ E    G   G   V   S +
Sbjct: 12  KPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEK---GMPTGEAMVAFESRD 68

Query: 126 SMSLVMERLPTLELHGRK 143
             +  +  L    +  RK
Sbjct: 69  EATAAVIDLNDRPIGSRK 86

>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 = 44.5 bits (106), Expect = 3e-06
 Identities = 19/83 (22%), Positives = 31/83 (37%), Gaps = 19/83 (22%)

Query: 68  SSHCNLYVGNLTWWTTEADMSD------AIRSIGVP-DFIDVKFFENASNGQSKGFCTVT 120
           S    ++VG +    +E D+ +      A+  I V  D        + +  QSKG C VT
Sbjct: 1   SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRD-------RSQNPPQSKGCCFVT 53

Query: 121 LGSEESMSLVMERLPTLELHGRK 143
             + ++            LH  K
Sbjct: 54  FYTRKAALEAQN-----ALHNMK 71

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 44.1 bits (105), Expect = 3e-06
 Identities = 16/72 (22%), Positives = 30/72 (41%), Gaps = 3/72 (4%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
            ++VG +       +  +     G    ID +   +   GQS+GF  VT  S +++  V 
Sbjct: 89  KIFVGGIGPDVRPKEFEEFFSQWG--TIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVC 146

Query: 132 ERLPTLELHGRK 143
           +    ++   RK
Sbjct: 147 Q-NKFIDFKDRK 157

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 37.1 bits (87), Expect = 9e-04
 Identities = 16/62 (25%), Positives = 33/62 (53%), Gaps = 2/62 (3%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
           C +++G L W TTE ++ +     G     D+K  ++ + G+S+GF  ++     S+  V
Sbjct: 4   CKMFIGGLNWDTTEDNLREYFGKYG--TVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEV 61

Query: 131 ME 132
           ++
Sbjct: 62  VK 63

>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 = 42.7 bits (101), Expect = 3e-06
 Identities = 14/82 (17%), Positives = 29/82 (35%), Gaps = 4/82 (4%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIG-VPDFIDVKFFENASNGQSKGFCTVTL 121
           S +       + V N+ +  +  ++ D       +P  + +K+ E    G   G   V  
Sbjct: 8   SSSGKPGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEK---GMPTGEAMVAF 64

Query: 122 GSEESMSLVMERLPTLELHGRK 143
            S +  +  +  L    +  RK
Sbjct: 65  ESRDEATAAVIDLNDRPIGSRK 86

>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 = 43.1 bits (102), Expect = 3e-06
 Identities = 17/83 (20%), Positives = 28/83 (33%), Gaps = 17/83 (20%)

Query: 72  NLYVGNLTWWTTEADMSD------AIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEE 125
            LY+ NL +  T  +M D       IR I V +             +++G   V      
Sbjct: 10  ILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGN-----------TPETRGTAYVVYEDIF 58

Query: 126 SMSLVMERLPTLELHGRKPMVAY 148
                ++ L    +  R  +V Y
Sbjct: 59  DAKNAVDHLSGFNVSNRYLVVLY 81

>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 = 43.1 bits (102), Expect = 3e-06
 Identities = 14/79 (17%), Positives = 29/79 (36%), Gaps = 8/79 (10%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS 123
             +S  +C +Y G +    T+  M       G    ++++ F        KG+  V   +
Sbjct: 19  NQSSPKNCTVYCGGIASGLTDQLMRQTFSPFG--QIMEIRVF------PEKGYSFVRFST 70

Query: 124 EESMSLVMERLPTLELHGR 142
            ES +  +  +    + G 
Sbjct: 71  HESAAHAIVSVNGTTIEGH 89

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 44.7 bits (106), Expect = 3e-06
 Identities = 20/93 (21%), Positives = 31/93 (33%), Gaps = 10/93 (10%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
            + T +  C L+VGNL    TE D        G  +  +V         + +GF  + L 
Sbjct: 15  GEKTYTQRCRLFVGNLPTDITEEDFKRLFERYG--EPSEVFI------NRDRGFGFIRLE 66

Query: 123 SEESMSLVMERLPTLELHGR--KPMVAYPTRNV 153
           S     +    L    L  R  +   A     +
Sbjct: 67  SRTLAEIAKAELDGTILKSRPLRIRFATHGAAL 99

>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 = 42.7 bits (101), Expect = 4e-06
 Identities = 18/88 (20%), Positives = 28/88 (31%), Gaps = 8/88 (9%)

Query: 58  YSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFC 117
                S++       L+VG L    +E D+    +  G     +        +G SKG  
Sbjct: 3   SGSSGSESRGGRDRKLFVGMLNKQQSEEDVLRLFQPFG--VIDECTVLRG-PDGSSKGCA 59

Query: 118 TVTLGSEESMSLVMERLPTLELHGRKPM 145
            V   S       +       LHG + M
Sbjct: 60  FVKFSSHTEAQAAIH-----ALHGSQTM 82

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 42.3 bits (100), Expect = 5e-06
 Identities = 19/95 (20%), Positives = 33/95 (34%), Gaps = 13/95 (13%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           S  +S    +L+VG+LT    +  + +    +  P     K   +   G SKG+  V   
Sbjct: 2   SSGSSGPEYSLFVGDLTPDVDDGMLYEFFVKVY-PSCRGGKVVLD-QTGVSKGYGFVKFT 59

Query: 123 SEESMSLVMERLPTLELHGR-----KPM-VAYPTR 151
            E      +      E  G      KP+ ++    
Sbjct: 60  DELEQKRALT-----ECQGAVGLGSKPVRLSVAIP 89

>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 = 42.3 bits (100), Expect = 5e-06
 Identities = 14/78 (17%), Positives = 29/78 (37%), Gaps = 2/78 (2%)

Query: 65  ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE 124
             S     L+V ++     E ++ +     G  +  ++    +   G SKG+  V   + 
Sbjct: 21  QRSVEGWILFVTSIHEEAQEDEIQEKFCDYG--EIKNIHLNLDRRTGFSKGYALVEYETH 78

Query: 125 ESMSLVMERLPTLELHGR 142
           +      E L   E+ G+
Sbjct: 79  KQALAAKEALNGAEIMGQ 96

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

 Score = 41.7 bits (98), Expect = 7e-06
 Identities = 15/90 (16%), Positives = 28/90 (31%), Gaps = 5/90 (5%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
                 L + N+        +   +   GV     V+  E  +         VT  S++ 
Sbjct: 12  RQRIRKLQIRNIPPHLQWEVLDSLLVQYGV-----VESCEQVNTDSETAVVNVTYSSKDQ 66

Query: 127 MSLVMERLPTLELHGRKPMVAYPTRNVLYQ 156
               +++L   +L      VAY    +  Q
Sbjct: 67  ARQALDKLNGFQLENFTLKVAYIPDEMAAQ 96

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A Length = 102

 Score = 41.8 bits (99), Expect = 7e-06
 Identities = 15/72 (20%), Positives = 32/72 (44%), Gaps = 5/72 (6%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
            ++VG +     E ++       G     +VK   + + G SKG+  V+  ++  +  ++
Sbjct: 11  TVFVGGIDVRMDETEIRSFFARYG--SVKEVKIITDRT-GVSKGYGFVSFYNDVDVQKIV 67

Query: 132 ERLPTLELHGRK 143
           E    +  HG+K
Sbjct: 68  ES--QINFHGKK 77

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 41.9 bits (99), Expect = 8e-06
 Identities = 16/85 (18%), Positives = 31/85 (36%), Gaps = 3/85 (3%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS 123
           +       NLY+ NL     E ++ + ++  G    I  +   + S+G S+G     + S
Sbjct: 19  KQQEQDPTNLYISNLPLSMDEQELENMLKPFG--QVISTRILRD-SSGTSRGVGFARMES 75

Query: 124 EESMSLVMERLPTLELHGRKPMVAY 148
            E    V+       +     + A 
Sbjct: 76  TEKCEAVIGHFNGKFIKTPPGVSAP 100

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 41.0 bits (97), Expect = 1e-05
 Identities = 15/82 (18%), Positives = 36/82 (43%), Gaps = 3/82 (3%)

Query: 62  HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTL 121
            S ++ S    ++VG +     E ++ +  +  G     +V    +A   + +GF  +T 
Sbjct: 2   SSGSSGSKSNKIFVGGIPHNCGETELREYFKKFG--VVTEVVMIYDAEKQRPRGFGFITF 59

Query: 122 GSEESMSLVMERLPTLELHGRK 143
             E+S+   +  +   ++ G+K
Sbjct: 60  EDEQSVDQAVN-MHFHDIMGKK 80

>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 = 2e-05
 Identities = 13/78 (16%), Positives = 27/78 (34%), Gaps = 11/78 (14%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPD-FIDVKFFENASNGQSKGFCTVTLGSEE 125
           SS    + V NL   +   ++ D ++   +   ++D           +K    VTL + E
Sbjct: 2   SSGSSGILVKNLPQDSNCQEVHDLLKDYDLKYCYVDR----------NKRTAFVTLLNGE 51

Query: 126 SMSLVMERLPTLELHGRK 143
                ++        G+ 
Sbjct: 52  QAQNAIQMFHQYSFRGKD 69

>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 = 42.2 bits (99), Expect = 2e-05
 Identities = 15/109 (13%), Positives = 33/109 (30%), Gaps = 9/109 (8%)

Query: 40  QPFPEHTGRSPARYRHHRYSHHHSQATSSSH---CNLYVGNLTWWTTEADMSDAIRSIGV 96
               +   +       HR+    S+   +       L++ N+    +E D+     S G 
Sbjct: 87  GQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGG 146

Query: 97  PDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM 145
              +    F      + +    + +GS E     +  L   +L     +
Sbjct: 147 --VVKGFKFFQ----KDRKMALIQMGSVEEAVQALIDLHNHDLGENHHL 189

>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 = 40.7 bits (96), Expect = 2e-05
 Identities = 19/80 (23%), Positives = 28/80 (35%), Gaps = 8/80 (10%)

Query: 64  QATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS 123
           + T SS   LYV NL   T+E  +     +I       VK        + + +  V   +
Sbjct: 9   EDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK--------KIRDYAFVHFSN 60

Query: 124 EESMSLVMERLPTLELHGRK 143
            E     M+ L    L G  
Sbjct: 61  REDAVEAMKALNGKVLDGSP 80

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A Length = 87

 Score = 40.1 bits (94), Expect = 2e-05
 Identities = 15/73 (20%), Positives = 24/73 (32%), Gaps = 4/73 (5%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFE---NASNGQSKGFCTVTLGSEESMSL 129
           LYVGN+ +  TE  M D   +      +              Q K F  +   S +  + 
Sbjct: 9   LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQ 68

Query: 130 VMERLPTLELHGR 142
            M     +   G+
Sbjct: 69  AMA-FDGIIFQGQ 80

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Length = 115

 Score = 40.7 bits (96), Expect = 2e-05
 Identities = 16/82 (19%), Positives = 33/82 (40%), Gaps = 4/82 (4%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
                N+++ NL        + D   + G  + +  K   +     SKG+  V   ++E+
Sbjct: 2   PLGSGNIFIKNLDKSIDNKALYDTFSAFG--NILSCKVVCD--ENGSKGYGFVHFETQEA 57

Query: 127 MSLVMERLPTLELHGRKPMVAY 148
               +E++  + L+ RK  V  
Sbjct: 58  AERAIEKMNGMLLNDRKVFVGR 79

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A Length = 75

 Score = 39.4 bits (93), Expect = 3e-05
 Identities = 17/71 (23%), Positives = 31/71 (43%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           ++VG L+  TT  D+       G     D     + +  + +GF  VT  SE+ +  V E
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQFG--KVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE 59

Query: 133 RLPTLELHGRK 143
            +   E++ + 
Sbjct: 60  -IHFHEINNKM 69

>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 = 39.9 bits (94), Expect = 3e-05
 Identities = 19/108 (17%), Positives = 36/108 (33%), Gaps = 20/108 (18%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           S ++  +   L+VGN++   T  ++       G     D+           K +  V + 
Sbjct: 3   SGSSGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV----------KDYAFVHME 52

Query: 123 SEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRS 170
             E     +  L   E  G++  V            + + LR+ S  S
Sbjct: 53  RAEDAVEAIRGLDNTEFQGKRMHVQ----------LSTSRLRTASGPS 90

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A Length = 75

 Score = 39.4 bits (93), Expect = 4e-05
 Identities = 15/71 (21%), Positives = 31/71 (43%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           ++VG L+  T E  + +     G  +   ++   +    + +GFC +T   EE +  +ME
Sbjct: 2   IFVGGLSPDTPEEKIREYFGGFG--EVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 59

Query: 133 RLPTLELHGRK 143
           +     +   K
Sbjct: 60  K-KYHNVGLSK 69

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 Length = 77

 Score = 39.0 bits (92), Expect = 4e-05
 Identities = 15/73 (20%), Positives = 32/73 (43%), Gaps = 3/73 (4%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
           C +++G L+W TT+  + +     G  +  +     +    +S+GF  VT   +  +  V
Sbjct: 1   CKMFIGGLSWQTTQEGLREYFGQFG--EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV 58

Query: 131 MERLPTLELHGRK 143
           + +    EL  + 
Sbjct: 59  LAQSRH-ELDSKT 70

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 40.7 bits (96), Expect = 6e-05
 Identities = 13/71 (18%), Positives = 29/71 (40%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           ++VG +   T E  + D     G      ++   +  +G+ +GF  VT    +S+  ++ 
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYG--KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 164

Query: 133 RLPTLELHGRK 143
                 ++G  
Sbjct: 165 -QKYHTVNGHN 174

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 38.8 bits (91), Expect = 3e-04
 Identities = 17/77 (22%), Positives = 31/77 (40%), Gaps = 3/77 (3%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
                 L++G L++ TT+  +       G     D     + +  +S+GF  VT  + E 
Sbjct: 10  PEQLRKLFIGGLSFETTDESLRSHFEQWG--TLTDCVVMRDPNTKRSRGFGFVTYATVEE 67

Query: 127 MSLVMERLPTLELHGRK 143
           +   M   P  ++ GR 
Sbjct: 68  VDAAMNARPH-KVDGRV 83

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 40.8 bits (95), Expect = 7e-05
 Identities = 15/115 (13%), Positives = 32/115 (27%), Gaps = 5/115 (4%)

Query: 40  QPFPEHTGRSPARYRHHRYS---HHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGV 96
                 + +  +  R++R+S                L+  N     TE +  +    +GV
Sbjct: 90  LEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDELGV 149

Query: 97  PDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTR 151
                VK F      +      +   S+      +  L   ++        Y  +
Sbjct: 150 KRPTSVKVFSG--KSERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYTLK 202

>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 = 39.1 bits (91), Expect = 8e-05
 Identities = 10/71 (14%), Positives = 26/71 (36%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
            +        +    L W  T  D+ +      + +  +   F    +G+ +G   + + 
Sbjct: 4   LEEEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEME 63

Query: 123 SEESMSLVMER 133
           SE+ +   +E+
Sbjct: 64  SEQDVQKALEK 74

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 105

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 3/85 (3%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
           S   + + +     L+VG L W TT+  +       G  + +D    ++ +  QS+GF  
Sbjct: 5   SSGMNNSGADEIGKLFVGGLDWSTTQETLRSYFSQYG--EVVDCVIMKDKTTNQSRGFGF 62

Query: 119 VTLGSEESMSLVMERLPTLELHGRK 143
           V       +  V+   P   L GR 
Sbjct: 63  VKFKDPNCVGTVLASRPH-TLDGRN 86

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

 Score = 38.3 bits (89), Expect = 1e-04
 Identities = 14/83 (16%), Positives = 26/83 (31%), Gaps = 7/83 (8%)

Query: 66  TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEE 125
            +    ++YVGNL      +D+  A+R +G             +    +    +      
Sbjct: 15  GAPLAADVYVGNLPRDARVSDLKRALRELGSVPL-------RLTWQGPRRRAFLHYPDSA 67

Query: 126 SMSLVMERLPTLELHGRKPMVAY 148
           +    +  L  L L      VA 
Sbjct: 68  AAQQAVSCLQGLRLGTDTLRVAL 90

>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 = 38.1 bits (89), Expect = 2e-04
 Identities = 9/71 (12%), Positives = 31/71 (43%), Gaps = 4/71 (5%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           S ++ ++   + +    +  TE ++ + +  +     + ++   N ++G   G+  V   
Sbjct: 3   SGSSGTTCHTVKLRGAPFNVTEKNVMEFLAPLKP---VAIRIVRN-AHGNKTGYIFVDFS 58

Query: 123 SEESMSLVMER 133
           +EE +   ++ 
Sbjct: 59  NEEEVKQALKC 69

>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 = 38.2 bits (89), Expect = 2e-04
 Identities = 12/75 (16%), Positives = 25/75 (33%), Gaps = 4/75 (5%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
           S       +     + V  + +   E D+ D    + V     V   ++   G++ G   
Sbjct: 5   SSGKPLPINPDDLYVSVHGMPFSAMENDVRDFFHGLRV---DAVHLLKDH-VGRNNGNGL 60

Query: 119 VTLGSEESMSLVMER 133
           V   S +     ++R
Sbjct: 61  VKFLSPQDTFEALKR 75

>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 = 37.8 bits (88), Expect = 2e-04
 Identities = 12/71 (16%), Positives = 26/71 (36%), Gaps = 4/71 (5%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           S   S++   +++  L +  TE D+ +    +     + V       +G+  G   V   
Sbjct: 8   SSFQSTTGHCVHMRGLPYRATENDIYNFFSPLNP---MRVHIEIG-PDGRVTGEADVEFA 63

Query: 123 SEESMSLVMER 133
           + E     M +
Sbjct: 64  THEDAVAAMAK 74

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 37.6 bits (88), Expect = 3e-04
 Identities = 21/85 (24%), Positives = 34/85 (40%), Gaps = 4/85 (4%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
                +       +L V  L W TTE D+ +   + G  + + V+  ++   G SKGF  
Sbjct: 4   GSSGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFG--EVLMVQVKKDLKTGHSKGFGF 61

Query: 119 VTLGSEESMSLVMERLPTLELHGRK 143
           V     E+   VM +     + GR 
Sbjct: 62  VRFTEYETQVKVMSQRHM--IDGRW 84

>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 = 38.7 bits (89), Expect = 4e-04
 Identities = 15/105 (14%), Positives = 37/105 (35%), Gaps = 9/105 (8%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSI--GVPDFIDVKFFENASNGQSKGFCTVTLGSEESMS 128
             +Y+ NL     + ++  ++ +I       +D+       + + +G   V      S +
Sbjct: 10  HTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR---SLKMRGQAFVIFKEVSSAT 66

Query: 129 LVMERLPTLELHGRKPMV---AYPTRNVLYQFEAQNPLRSRSRRS 170
             +  +     +  KPM    A    +++ + +     R R R  
Sbjct: 67  NALRSMQGFPFYD-KPMRIQYAKTDSDIIAKMKGTFVERDRKREK 110

>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 = 37.6 bits (87), Expect = 4e-04
 Identities = 12/61 (19%), Positives = 26/61 (42%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           + +  L W  +  D+ + +    + D +    F     G+  G   V L SE+ + L ++
Sbjct: 20  VKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALK 79

Query: 133 R 133
           +
Sbjct: 80  K 80

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 37.3 bits (87), Expect = 5e-04
 Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           L++G L++ TTE  + +     G     D     + ++ +S+GF  VT  S   +   M 
Sbjct: 30  LFIGGLSFETTEESLRNYYEQWG--KLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA 87

Query: 133 RLPTLELHGRK 143
             P   + GR 
Sbjct: 88  ARPH-SIDGRV 97

>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 = 38.1 bits (88), Expect = 6e-04
 Identities = 21/131 (16%), Positives = 34/131 (25%), Gaps = 10/131 (7%)

Query: 40  QPFPEHTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWT-TEADMSDAIRSIGVPD 98
                 +G  P      R +        + +  L V NL     T   +       G  D
Sbjct: 6   HHHHHSSGLVPRGSHMGRIAI--PGLAGAGNSVLLVSNLNPERVTPQSLFILFGVYG--D 61

Query: 99  FIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFE 158
              VK   N      K    V +       L M  L   +LHG+   +       +    
Sbjct: 62  VQRVKILFN-----KKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPR 116

Query: 159 AQNPLRSRSRR 169
                +  ++ 
Sbjct: 117 EGQEDQGLTKD 127

>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 = 37.7 bits (87), Expect = 7e-04
 Identities = 15/109 (13%), Positives = 33/109 (30%), Gaps = 9/109 (8%)

Query: 40  QPFPEHTGRSPARYRHHRYSHHHSQATSSSH---CNLYVGNLTWWTTEADMSDAIRSIGV 96
               +   +       HR+    S+   +       L++ N+    +E D+     S G 
Sbjct: 118 GQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGG 177

Query: 97  PDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM 145
              +    F      + +    + +GS E     +  L   +L     +
Sbjct: 178 --VVKGFKFFQ----KDRKMALIQMGSVEEAVQALIDLHNHDLGENHHL 220

>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 = 37.1 bits (86), Expect = 7e-04
 Identities = 15/94 (15%), Positives = 30/94 (31%), Gaps = 5/94 (5%)

Query: 41  PFPEHTGRSPARYRHHRYSHH-HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDF 99
           P   H        +  R S        S++   +++  L +  TE D+ +    +     
Sbjct: 16  PRGSHMASMTGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSPLNP--- 72

Query: 100 IDVKFFENASNGQSKGFCTVTLGSEESMSLVMER 133
           + V       +G+  G   V   + E     M +
Sbjct: 73  VRVHIEIGP-DGRVTGEADVEFATHEEAVAAMSK 105

>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 = 37.2 bits (86), Expect = 8e-04
 Identities = 19/96 (19%), Positives = 30/96 (31%), Gaps = 10/96 (10%)

Query: 48  RSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFEN 107
            +   + HH + H  S       C +YVGNL     + ++  A    G    + V     
Sbjct: 54  VTEGSHHHHHHMHRDSCPLD---CKVYVGNLGNNGNKTELERAFGYYGPLRSVWVA---- 106

Query: 108 ASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK 143
                  GF  V        +  +  L    L G +
Sbjct: 107 ---RNPPGFAFVEFEDPRDAADAVRELDGRTLCGCR 139

>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 = 36.9 bits (85), Expect = 9e-04
 Identities = 13/89 (14%), Positives = 28/89 (31%)

Query: 45  HTGRSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKF 104
               S    +                  + +  L W  +  D+ + +    + D      
Sbjct: 19  SHMASMTGGQQMGRGSMMLGPEGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVH 78

Query: 105 FENASNGQSKGFCTVTLGSEESMSLVMER 133
           F     G+  G   V LGSE+ + + +++
Sbjct: 79  FIYTREGRQSGEAFVELGSEDDVKMALKK 107

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	172
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.91
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.9
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.88
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.88
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.88
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.88
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.87
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.87
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.87
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.87
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.87
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.87
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.87
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.87
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.87
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.86
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.86
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.86
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.86
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.86
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.86
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.86
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.86
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.86
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.86
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.86
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.86
2div_A	99	TRNA selenocysteine associated protein; structural	99.86
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.86
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.86
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.86
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.86
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.86
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.86
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.86
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.85
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.85
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.85
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.85
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.85
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.85
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.85
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.85
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.85
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.85
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.85
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.85
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.85
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.85
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.84
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.84
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.84
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.84
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.84
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.84
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.84
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.84
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.84
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.84
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.84
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.84
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.84
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.84
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.84
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.84
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.83
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.83
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.83
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.83
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.83
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.83
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.83
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.83
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.83
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.83
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.83
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.83
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.83
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.83
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.83
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.82
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.82
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.82
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.82
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.82
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.82
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.82
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.82
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.82
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.82
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.82
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.82
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.82
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.82
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.81
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.81
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.81
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.81
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.81
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.81
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.81
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.81
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.8
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.8
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.8
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.8
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.8
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.8
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.8
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.8
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.8
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.8
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.8
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.8
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.8
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.79
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.79
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.79
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.79
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.79
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.79
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.79
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.79
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.79
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.79
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.79
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.78
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.78
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.66
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.78
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.78
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.78
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.78
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.78
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.78
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.77
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.77
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.77
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.77
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.77
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.77
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.77
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.76
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.76
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.76
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.76
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.76
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.76
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.76
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.76
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.76
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.76
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.75
1x5p_A	97	Negative elongation factor E; structure genomics,	99.75
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.75
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.75
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.75
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.74
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.74
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.73
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.73
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.73
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.73
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.73
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.72
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.72
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.72
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.72
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.72
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.71
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.7
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.7
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.7
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.7
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.69
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.69
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.69
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.68
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.68
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.67
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.67
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.67
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.66
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.66
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.66
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.66
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.65
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.65
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.63
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.61
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.61
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.6
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.6
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.58
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.57
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.57
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.56
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.56
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.56
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.53
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.52
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.5
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.48
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.36
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	99.31
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.23
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	99.17
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	99.08
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.56
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.95
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	97.73
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.54
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	97.02
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	96.89
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	96.79
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	96.66
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	96.51
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	96.4
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	95.74
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.66
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	86.68

>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=99.91  E-value=3.4e-24  Score=142.56  Aligned_cols=82  Identities=22%  Similarity=0.303  Sum_probs=78.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ..+++|||+|||+.+++++|+++|++||  .|..++|++|+.+|+++|||||+|.+.++|++|++.|||..|+|+.|+|+
T Consensus        17 ~~gt~lfV~nLp~~~te~~L~~~F~~~G--~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~   94 (99)
T 4fxv_A           17 FQGTNLIVNYLPQNMTQDELRSLFSSIG--EVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVS   94 (99)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHTTS--CEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            3467899999999999999999999999  99999999999999999999999999999999999999999999999999


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      +|+|
T Consensus        95 ~AkP   98 (99)
T 4fxv_A           95 YARP   98 (99)
T ss_dssp             ECCB
T ss_pred             EeeC
Confidence            9975

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

Probab=99.90  E-value=1.2e-23  Score=150.91  Aligned_cols=101  Identities=45%  Similarity=0.697  Sum_probs=89.4

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+||++.+++++|+++|+.||.+.|..++|+.|+.+|+++|||||+|.+.++|++||+.|||..|+|+.|+|.
T Consensus        53 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~  132 (156)
T 3n9u_C           53 NRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVR  132 (156)
T ss_dssp             ---CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEE
Confidence            35679999999999999999999999994358999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCcchhhhcCccccccc
Q psy8001         148 YPTRNVLYQFEAQNPLRSRSR  168 (172)
Q Consensus       148 ~a~~~~~~~~~~~~~~~~~~~  168 (172)
                      ++.+++..+++...+++...+
T Consensus       133 ~a~~~~~~~~e~~~rkr~~~~  153 (156)
T 3n9u_C          133 PATRQNLSQFEAQARKRECVR  153 (156)
T ss_dssp             ECCHHHHHHHHHHHHHHHC--
T ss_pred             EcCCCcchhhhhhcccccCCC
Confidence            999988888887777665443

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

Probab=99.88  E-value=2.7e-22  Score=135.81  Aligned_cols=82  Identities=13%  Similarity=0.144  Sum_probs=78.4

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      +..+|||+||++.+++++|+++|++||  .|..++|++|+.+|+++|||||+|.+.++|++||+.|||..|+|+.|+|.+
T Consensus         5 p~~~lfV~nL~~~~te~~L~~~F~~~G--~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~   82 (110)
T 3s8s_A            5 PLKEVTFARLNDNVRETFLKDMCRKYG--EVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQL   82 (110)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcC--CeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            456899999999999999999999999  999999999999999999999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      +...
T Consensus        83 a~~~   86 (110)
T 3s8s_A           83 DIKG   86 (110)
T ss_dssp             CSTT
T ss_pred             CCCC
Confidence            9754

>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=99.88  E-value=6.7e-22  Score=135.01  Aligned_cols=84  Identities=18%  Similarity=0.306  Sum_probs=79.1

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|++||  .|..+.|+.++ +|+++|||||+|.+.++|++|++.|||..|.|+.|+|+
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~-~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~   81 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHG--PISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVE   81 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSS--CCSEEEEECST-TTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEECC-CCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            4557999999999999999999999999  89999999998 99999999999999999999999999999999999999


Q ss_pred             ccCCCCc
Q psy8001         148 YPTRNVL  154 (172)
Q Consensus       148 ~a~~~~~  154 (172)
                      ++++...
T Consensus        82 ~a~~~~~   88 (116)
T 2fy1_A           82 QAKKPSF   88 (116)
T ss_dssp             ECCCSSC
T ss_pred             ECCCCCC
Confidence            9987553

>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=99.88  E-value=4.9e-22  Score=128.46  Aligned_cols=83  Identities=24%  Similarity=0.378  Sum_probs=76.9

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||..+++++|+++|++||  .+..+.++.++.+|.++|||||+|.+.++|++|++.|||..++|+.|+|+
T Consensus         4 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   81 (87)
T 3bs9_A            4 GSHFHVFVGDLSPEITTAAIAAAFAPFG--RISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTN   81 (87)
T ss_dssp             --CEEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHHHhcC--CEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence            3567999999999999999999999999  89999999998899999999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +++++
T Consensus        82 ~a~~k   86 (87)
T 3bs9_A           82 WATRK   86 (87)
T ss_dssp             EEC--
T ss_pred             ecCCC
Confidence            99764

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

Probab=99.88  E-value=2.1e-21  Score=131.99  Aligned_cols=89  Identities=22%  Similarity=0.342  Sum_probs=82.3

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|+.||  .|..|+|+.++.++.++|||||+|.+.++|++||+.|||..|+|+.|
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   87 (115)
T 2dgo_A           10 KDTSNHFHVFVGDLSPEITTEDIKAAFAPFG--RISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI   87 (115)
T ss_dssp             CCSTTCEEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEEC
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            3445678999999999999999999999999  89999999998899999999999999999999999999999999999


Q ss_pred             EEeccCCCCcc
Q psy8001         145 MVAYPTRNVLY  155 (172)
Q Consensus       145 ~v~~a~~~~~~  155 (172)
                      +|.++++....
T Consensus        88 ~V~~a~~~~~~   98 (115)
T 2dgo_A           88 RTNWATRKPPA   98 (115)
T ss_dssp             EEEESSCCCCC
T ss_pred             EEEEccCCCCC
Confidence            99999875533

>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=99.87  E-value=7.5e-22  Score=126.49  Aligned_cols=81  Identities=19%  Similarity=0.409  Sum_probs=77.7

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      +++|||+|||+.+++++|+++|++||  .+..+.+++++.+|.++|||||+|.+.++|++|++.|||..++|+.|+|+++
T Consensus         1 t~~l~V~nlp~~~t~~~l~~~f~~~G--~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a   78 (83)
T 3md1_A            1 TFNLFVGDLNVNVDDETLRNAFKDFP--SYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA   78 (83)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHTTST--TEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcC--CeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEec
Confidence            36899999999999999999999999  9999999999889999999999999999999999999999999999999999


Q ss_pred             CCC
Q psy8001         150 TRN  152 (172)
Q Consensus       150 ~~~  152 (172)
                      +++
T Consensus        79 ~~~   81 (83)
T 3md1_A           79 AKL   81 (83)
T ss_dssp             CCC
T ss_pred             CcC
Confidence            865

>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=99.87  E-value=1.3e-22  Score=132.37  Aligned_cols=83  Identities=51%  Similarity=0.930  Sum_probs=72.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      ++|||+|||+.+++++|+++|++||+..+..++++.++.+|+++|||||+|.+.++|++||+.|||..|+|+.|+|.++.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~   81 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSN   81 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC-
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECC
Confidence            58999999999999999999999994358899999999999999999999999999999999999999999999999998


Q ss_pred             CCC
Q psy8001         151 RNV  153 (172)
Q Consensus       151 ~~~  153 (172)
                      +..
T Consensus        82 ~~~   84 (90)
T 3p5t_L           82 KLE   84 (90)
T ss_dssp             ---
T ss_pred             CCc
Confidence            653

>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=99.87  E-value=1.7e-22  Score=153.33  Aligned_cols=96  Identities=49%  Similarity=0.871  Sum_probs=85.1

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+||++.+++++|+++|++||+..|..|+|++|+.+|+++|||||+|.+.++|++||+.|||..|+|+.|+|.+
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~  146 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTP  146 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEE
Confidence            56799999999999999999999999933489999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCcchhhhcCccc
Q psy8001         149 PTRNVLYQFEAQNPLR  164 (172)
Q Consensus       149 a~~~~~~~~~~~~~~~  164 (172)
                      +++....+++...+.+
T Consensus       147 a~~~~~~~~~~~~~~~  162 (229)
T 3q2s_C          147 VNKQFLSQFEMQSRKT  162 (229)
T ss_dssp             CCHHHHHHHHHHTCC-
T ss_pred             CCCCccchhhhhcccc
Confidence            9987777766555543

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

Probab=99.87  E-value=1e-21  Score=130.17  Aligned_cols=84  Identities=20%  Similarity=0.322  Sum_probs=78.4

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEE--------EEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCC
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFID--------VKFFENASNGQSKGFCTVTLGSEESMSLVMERLPT  136 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~--------~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g  136 (172)
                      ......++|||+|||+.+++++|+++|++||  .+..        ++++.++.+|+++|||||+|.+.++|++|++.|||
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g   85 (99)
T 2la6_A            8 HSHSDNNTIFVQGLGENVTIESVADYFKQIG--IIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDG   85 (99)
T ss_dssp             CSCCCCSEEEEECCCSSCCHHHHHHHHTTTS--CBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTT
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhC--CEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCC
Confidence            3445568999999999999999999999999  8888        99999998999999999999999999999999999


Q ss_pred             ceeCCcccEEeccC
Q psy8001         137 LELHGRKPMVAYPT  150 (172)
Q Consensus       137 ~~l~g~~l~v~~a~  150 (172)
                      ..|.|+.|+|++|+
T Consensus        86 ~~~~g~~l~V~~A~   99 (99)
T 2la6_A           86 KEFSGNPIKVSFAT   99 (99)
T ss_dssp             CBSSSSBCEEEECC
T ss_pred             CEeCCcEEEEEecC
Confidence            99999999999884

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

Probab=99.87  E-value=1.2e-22  Score=134.14  Aligned_cols=85  Identities=16%  Similarity=0.276  Sum_probs=77.2

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc----eeCCc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL----ELHGR  142 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~----~l~g~  142 (172)
                      .....+|||+|||+.+++++|+++|++||.+.+..|++++|+.+|+++|||||+|.+.++|++||+.|||.    .|+||
T Consensus         6 ~~~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr   85 (95)
T 2lkz_A            6 HHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGK   85 (95)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTE
T ss_pred             CCccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCE
Confidence            34456899999999999999999999999334678999999999999999999999999999999999997    59999


Q ss_pred             ccEEeccCC
Q psy8001         143 KPMVAYPTR  151 (172)
Q Consensus       143 ~l~v~~a~~  151 (172)
                      +|.|++|+.
T Consensus        86 ~i~V~~Aks   94 (95)
T 2lkz_A           86 TIGVDFAKS   94 (95)
T ss_dssp             EEEEEECCC
T ss_pred             EEEEEEccC
Confidence            999999974

>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=99.87  E-value=2.4e-21  Score=131.77  Aligned_cols=85  Identities=15%  Similarity=0.232  Sum_probs=79.9

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..++|+.++.++.++|||||+|.+.++|++||+.|||..|.|+.|+
T Consensus        21 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   98 (115)
T 2cpz_A           21 EGPEGANLFIYHLPQEFGDQDLLQMFMPFG--NVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLK   98 (115)
T ss_dssp             CCSTTCCEEEESCCSSCCHHHHHHHHGGGS--CCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            344567999999999999999999999999  899999999998999999999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |++++++
T Consensus        99 V~~a~~~  105 (115)
T 2cpz_A           99 VQLKRSK  105 (115)
T ss_dssp             EECCCCS
T ss_pred             EEEcCCC
Confidence            9999864

>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=99.87  E-value=1.8e-21  Score=130.25  Aligned_cols=87  Identities=18%  Similarity=0.289  Sum_probs=81.1

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..+.|+.++.++.++|||||+|.+.++|++||+.|||..|.|+.|
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   87 (105)
T 1x5u_A           10 SERNQDATVYVGGLDEKVSEPLLWELFLQAG--PVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPI   87 (105)
T ss_dssp             CCCCTTTEEEEECCCTTCCHHHHHHHHHTTS--CEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBC
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEE
Confidence            3445668999999999999999999999999  99999999999899999999999999999999999999999999999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      +|.++++..
T Consensus        88 ~v~~a~~~~   96 (105)
T 1x5u_A           88 RVNKASAHN   96 (105)
T ss_dssp             EEEETTTTS
T ss_pred             EEEECCCCC
Confidence            999998653

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

Probab=99.87  E-value=2.7e-21  Score=132.02  Aligned_cols=84  Identities=19%  Similarity=0.349  Sum_probs=78.5

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..++|+.++.+|+++|||||+|.+.++|++|++.|||..|+|++|
T Consensus        35 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l  112 (118)
T 2khc_A           35 IEGPEGCNLFIYHLPQEFTDTDLASTFLPFG--NVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRL  112 (118)
T ss_dssp             CCCCCSEEEEEECSCTTCCHHHHHHHTTTSC--EEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEEC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            3445678999999999999999999999999  99999999998899999999999999999999999999999999999


Q ss_pred             EEeccC
Q psy8001         145 MVAYPT  150 (172)
Q Consensus       145 ~v~~a~  150 (172)
                      +|++++
T Consensus       113 ~V~~ak  118 (118)
T 2khc_A          113 KVQLKK  118 (118)
T ss_dssp             CEEEC-
T ss_pred             EEEecC
Confidence            999884

>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=99.87  E-value=1.3e-21  Score=125.91  Aligned_cols=82  Identities=22%  Similarity=0.338  Sum_probs=77.7

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .+..+.++.++.++.++|||||+|.+.++|++|++.|||..++|+.|+|
T Consensus         4 ~~~~~~l~V~nl~~~~~~~~l~~~f~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v   81 (85)
T 3mdf_A            4 ATTKRVLYVGGLAEEVDDKVLHAAFIPFG--DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRV   81 (85)
T ss_dssp             CCCSSEEEEECCCTTCCHHHHHHHHGGGS--CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhccC--CEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            34567999999999999999999999999  9999999999889999999999999999999999999999999999999


Q ss_pred             eccC
Q psy8001         147 AYPT  150 (172)
Q Consensus       147 ~~a~  150 (172)
                      ++++
T Consensus        82 ~~ak   85 (85)
T 3mdf_A           82 NLAK   85 (85)
T ss_dssp             EECC
T ss_pred             EEcC
Confidence            9985

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

Probab=99.86  E-value=2.9e-22  Score=131.16  Aligned_cols=82  Identities=27%  Similarity=0.368  Sum_probs=75.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCC-CceeCCcccEEecc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP-TLELHGRKPMVAYP  149 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~-g~~l~g~~l~v~~a  149 (172)
                      .+|||+|||+.+++++|+++|++||. .+..|+|++|+.+|.++|||||+|.+.++|++||+.|+ +..++|++|+|++|
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~G~-~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a   80 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSHGV-QAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYS   80 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHTC-CCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCC-EeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEc
Confidence            47999999999999999999999993 37889999999999999999999999999999999874 56899999999999


Q ss_pred             CCCC
Q psy8001         150 TRNV  153 (172)
Q Consensus       150 ~~~~  153 (172)
                      +++.
T Consensus        81 ~~~~   84 (91)
T 2lxi_A           81 DPKP   84 (91)
T ss_dssp             CSCC
T ss_pred             CCCC
Confidence            8754

>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=99.86  E-value=3.4e-21  Score=129.89  Aligned_cols=86  Identities=27%  Similarity=0.422  Sum_probs=80.3

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||..+++++|+++|++||  .|..+.++.++.+|.++|||||+|.+.++|++|++.|||..|+|+.|
T Consensus        21 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l   98 (108)
T 2jrs_A           21 KGSAGPMRLYVGSLHFNITEDMLRGIFEPFG--RIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPM   98 (108)
T ss_dssp             CSCSSCEEEEEECCCSSCCHHHHHHHHTTTS--CEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCC
T ss_pred             cCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            3344567999999999999999999999999  99999999999899999999999999999999999999999999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      +|++++++
T Consensus        99 ~V~~a~~k  106 (108)
T 2jrs_A           99 KVGHVTER  106 (108)
T ss_dssp             EEECSCSS
T ss_pred             EEEEcccC
Confidence            99999764

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

Probab=99.86  E-value=3.9e-21  Score=126.15  Aligned_cols=85  Identities=28%  Similarity=0.429  Sum_probs=79.6

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..+.++.++.++.++|||||+|.+.++|++|++.|||..|+|++|
T Consensus        10 ~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G--~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l   87 (95)
T 2cqc_A           10 ANPDPNCCLGVFGLSLYTTERDLREVFSKYG--PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI   87 (95)
T ss_dssp             CSCCGGGCEEEESCCSSCCHHHHHHHHHTTS--CEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcC--CeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            3345568999999999999999999999999  99999999999899999999999999999999999999999999999


Q ss_pred             EEeccCC
Q psy8001         145 MVAYPTR  151 (172)
Q Consensus       145 ~v~~a~~  151 (172)
                      +|++++.
T Consensus        88 ~v~~a~~   94 (95)
T 2cqc_A           88 RVSGPSS   94 (95)
T ss_dssp             EEECCSC
T ss_pred             EEEecCC
Confidence            9999874

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

Probab=99.86  E-value=2e-21  Score=130.15  Aligned_cols=85  Identities=21%  Similarity=0.253  Sum_probs=79.8

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..+.|+.++.+|.++|||||+|.+.++|++|++.|||..|+|+.|+
T Consensus        19 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   96 (106)
T 1p27_B           19 RSVEGWILFVTGVHEEATEEDIHDKFAEYG--EIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPIS   96 (106)
T ss_dssp             CBTTBEEEEEECCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhccC--CeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEE
Confidence            344568999999999999999999999999  999999999998999999999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.+++++
T Consensus        97 V~~a~~~  103 (106)
T 1p27_B           97 VDWCFVR  103 (106)
T ss_dssp             EEESEES
T ss_pred             EEeecCC
Confidence            9999754

>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=99.86  E-value=2.4e-21  Score=127.70  Aligned_cols=85  Identities=21%  Similarity=0.367  Sum_probs=80.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .++|||+|||..+++++|+++|++||  .|..++++.++.+|.++|||||+|.+.++|++|++.|||..++|+.|+|+++
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   79 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVG--PVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYS   79 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTS--CEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcC--CEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEc
Confidence            46899999999999999999999999  9999999999989999999999999999999999999999999999999999


Q ss_pred             CCCCcch
Q psy8001         150 TRNVLYQ  156 (172)
Q Consensus       150 ~~~~~~~  156 (172)
                      +++....
T Consensus        80 ~~~~~~~   86 (96)
T 2x1f_A           80 SNSDISG   86 (96)
T ss_dssp             SCSSGGG
T ss_pred             CCCCCCC
Confidence            8765443

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

Probab=99.86  E-value=2.6e-21  Score=127.09  Aligned_cols=82  Identities=27%  Similarity=0.447  Sum_probs=78.5

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..+.++.++.+++++|||||+|.+.++|++|++.|||..|.|+.|+|++
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G--~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   81 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFG--KIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGH   81 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTS--CEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcC--CEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEE
Confidence            457999999999999999999999999  999999999998999999999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      ++++
T Consensus        82 a~~~   85 (95)
T 2dnz_A           82 VTER   85 (95)
T ss_dssp             SSCC
T ss_pred             cccc
Confidence            9764

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

Probab=99.86  E-value=2.1e-20  Score=131.05  Aligned_cols=87  Identities=18%  Similarity=0.215  Sum_probs=81.2

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|+.||  .|..|+|+.++.+++++|||||+|.+.++|++||+.|||..|.|+.|
T Consensus        37 ~~~~~~~~l~V~nLp~~~~~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l  114 (139)
T 1u6f_A           37 PEPDVLRNLMVNYIPTTVDEVQLRQLFERYG--PIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRL  114 (139)
T ss_dssp             CCTTTTSEEEEESCSTTCCHHHHHHHHHHHS--CEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEE
Confidence            3445668999999999999999999999999  99999999999899999999999999999999999999999999999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      +|+++++..
T Consensus       115 ~v~~a~~~~  123 (139)
T 1u6f_A          115 KVALAASGH  123 (139)
T ss_dssp             EEEESSCCC
T ss_pred             EEEECCCCC
Confidence            999998653

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

Probab=99.86  E-value=2.1e-21  Score=129.52  Aligned_cols=85  Identities=19%  Similarity=0.307  Sum_probs=80.2

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..|.|+.++.++.++|||||+|.+.++|++||+.|||..|.|+.|+
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   88 (103)
T 2cq0_A           11 RADDNATIRVTNLSEDTRETDLQELFRPFG--SISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILN   88 (103)
T ss_dssp             CCSSSEEEEEESCCTTCCHHHHHTTSTTTC--CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCC--CeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEE
Confidence            345668999999999999999999999999  999999999998999999999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.+++++
T Consensus        89 v~~a~~~   95 (103)
T 2cq0_A           89 VEWAKPS   95 (103)
T ss_dssp             EEESSCC
T ss_pred             EEECCCC
Confidence            9999764

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

Probab=99.86  E-value=3.1e-21  Score=127.75  Aligned_cols=84  Identities=18%  Similarity=0.352  Sum_probs=78.8

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..+.|+.++.++.++|||||+|.+.++|++||+ ||+..|.|+.|+
T Consensus         6 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~   82 (99)
T 2dgs_A            6 SGSKSNKIFVGGIPHNCGETELREYFKKFG--VVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVE   82 (99)
T ss_dssp             CCSSCCEEEEESCCSSCCHHHHHHHHSSSS--CEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEECCeEEE
Confidence            344567999999999999999999999999  99999999999899999999999999999999999 999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.+++++
T Consensus        83 V~~a~~~   89 (99)
T 2dgs_A           83 VKRAEPR   89 (99)
T ss_dssp             EEECCCC
T ss_pred             EEECCCC
Confidence            9999864

>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=99.86  E-value=3.3e-21  Score=127.57  Aligned_cols=85  Identities=22%  Similarity=0.285  Sum_probs=80.1

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .|..+.|+.++.++.++|||||+|.+.++|++|++.|||..|.|+.|+|
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   82 (99)
T 1whw_A            5 SSGSGRLFVRNLSYTSSEEDLEKLFSAYG--PLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHV   82 (99)
T ss_dssp             CCSCEEEEEECCCTTCCHHHHHHHHHTTS--CEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            34568999999999999999999999999  9999999999989999999999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      .+++++.
T Consensus        83 ~~a~~~~   89 (99)
T 1whw_A           83 LPSTIKK   89 (99)
T ss_dssp             EECCCCS
T ss_pred             EEcCCCc
Confidence            9998753

>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=99.86  E-value=2.4e-21  Score=131.94  Aligned_cols=80  Identities=20%  Similarity=0.327  Sum_probs=74.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..+|||+|||+.+++++|+++|++||  .|..++|++++  +.++|||||+|.+.++|++||+.|||..|+|+.|+|.++
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G--~v~~v~i~~d~--~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a   80 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFG--NILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF   80 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEEET--TEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccC--CEEEEEEeecC--CCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            45899999999999999999999999  99999999985  457999999999999999999999999999999999999


Q ss_pred             CCCC
Q psy8001         150 TRNV  153 (172)
Q Consensus       150 ~~~~  153 (172)
                      +++.
T Consensus        81 ~~~~   84 (115)
T 4f25_A           81 KSRK   84 (115)
T ss_dssp             SCCC
T ss_pred             CCcc
Confidence            8643

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

Probab=99.86  E-value=1.4e-21  Score=130.40  Aligned_cols=86  Identities=20%  Similarity=0.234  Sum_probs=80.4

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..+.|+.++.++.++|||||+|.+.++|++||+.|||..|.|+.|
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l   85 (103)
T 2dnm_A            8 PDVDGMITLKVDNLTYRTSPDSLRRVFEKYG--RVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGREL   85 (103)
T ss_dssp             SCCSCCCEEEEESCCTTCCHHHHHHHHTTTS--CEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCC
T ss_pred             CCCCCCeEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEE
Confidence            3445568999999999999999999999999  89999999999899999999999999999999999999999999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      +|.+++..
T Consensus        86 ~V~~a~~~   93 (103)
T 2dnm_A           86 RVQVARYG   93 (103)
T ss_dssp             EEEECSSC
T ss_pred             EEEECCcC
Confidence            99999864

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

Probab=99.86  E-value=4e-21  Score=127.18  Aligned_cols=84  Identities=23%  Similarity=0.403  Sum_probs=79.1

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeE-EEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc--
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFI-DVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK--  143 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~-~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~--  143 (172)
                      ....++|||+|||+.+++++|+++|++||  .+. .++|+.++.++.++|||||+|.+.++|++|++.|||..|.|+.  
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~   83 (99)
T 2div_A            6 SGMAASLWMGDLEPYMDENFISRAFATMG--ETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPA   83 (99)
T ss_dssp             CSSSSEEEECSCCTTCCHHHHHHHHHHTT--CCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSC
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHHHHhC--CcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcc
Confidence            34567999999999999999999999999  888 9999999999999999999999999999999999999999999  


Q ss_pred             --cEEeccCCC
Q psy8001         144 --PMVAYPTRN  152 (172)
Q Consensus       144 --l~v~~a~~~  152 (172)
                        |+|.++++.
T Consensus        84 ~~l~v~~a~~~   94 (99)
T 2div_A           84 KRFKLNYATYS   94 (99)
T ss_dssp             EECCEEETTCC
T ss_pred             eeEEEeecCCC
Confidence              999999764

>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=99.86  E-value=1.5e-21  Score=134.78  Aligned_cols=87  Identities=21%  Similarity=0.234  Sum_probs=80.9

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..|.|+.++.++.++|||||+|.+.++|++||+.|||..|.|+.|
T Consensus        17 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   94 (126)
T 3ex7_B           17 QRSVEGWILFVTGVHEEATEEDIHDKFAEYG--EIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI   94 (126)
T ss_dssp             CCCSSSEEEEEESCCTTCCHHHHHHHHHTTS--CEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEE
Confidence            3445578999999999999999999999999  99999999999899999999999999999999999999999999999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      .|+++++..
T Consensus        95 ~v~~a~~~~  103 (126)
T 3ex7_B           95 SVDWCFVRG  103 (126)
T ss_dssp             EEEESEESS
T ss_pred             EEEEecCCC
Confidence            999998644

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

Probab=99.86  E-value=2.7e-21  Score=126.74  Aligned_cols=82  Identities=20%  Similarity=0.319  Sum_probs=77.7

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .|..+.++.++.++.++|||||+|.+.++|++|++.|||..|.|++|+|
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G--~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   90 (94)
T 2e5h_A           13 APSKSTVYVSNLPFSLTNNDLYRIFSKYG--KVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKA   90 (94)
T ss_dssp             CCCTTSEEEESCCTTSCHHHHHHHTTTTS--CEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcC--CeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEE
Confidence            34567999999999999999999999999  8999999999988999999999999999999999999999999999999


Q ss_pred             eccC
Q psy8001         147 AYPT  150 (172)
Q Consensus       147 ~~a~  150 (172)
                      ++|+
T Consensus        91 ~~ak   94 (94)
T 2e5h_A           91 SIAI   94 (94)
T ss_dssp             EECC
T ss_pred             EecC
Confidence            9985

>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=99.86  E-value=4.8e-21  Score=136.93  Aligned_cols=84  Identities=24%  Similarity=0.361  Sum_probs=79.7

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|++||  .|..|.|+.++.++.++|||||+|.+.++|++||+.||+..|.|+.|+|+
T Consensus        37 ~~~~~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           37 KKSCTLYVGNLSFYTTEEQIYELFSKSG--DIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTD  114 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            4567999999999999999999999999  89999999999899999999999999999999999999999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      ++++..
T Consensus       115 ~a~~~~  120 (156)
T 1h2v_Z          115 WDAGFK  120 (156)
T ss_dssp             EESCCC
T ss_pred             ECCCCC
Confidence            998643

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

Probab=99.86  E-value=6e-21  Score=126.60  Aligned_cols=85  Identities=19%  Similarity=0.330  Sum_probs=79.3

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..+.|+.++ +|+++|||||+|.+.++|++|++.|||..|.|+.|+
T Consensus        13 ~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   89 (100)
T 2do4_A           13 TSLEKHKLFISGLPFSCTKEELEEICKAHG--TVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIK   89 (100)
T ss_dssp             SCCCCSCEEEESCCTTCCHHHHHHHHTTTS--CEEEEEEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhCC--CeEEEEEEECC-CCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            344567999999999999999999999999  89999999998 999999999999999999999999999999999999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |.+++++.
T Consensus        90 v~~a~~~~   97 (100)
T 2do4_A           90 VAISNSGP   97 (100)
T ss_dssp             EEECCCCS
T ss_pred             EEECCCCC
Confidence            99998653

>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=99.86  E-value=5.7e-21  Score=128.91  Aligned_cols=86  Identities=17%  Similarity=0.318  Sum_probs=80.4

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCC------Cce
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP------TLE  138 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~------g~~  138 (172)
                      ......++|||+|||+.+++++|+++|.+||  .|..|.|++++.++.++|||||+|.+.++|++||+.||      +..
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~   87 (111)
T 1x4h_A           10 SDVTEGKTVFIRNLSFDSEEEALGEVLQQFG--DLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLK   87 (111)
T ss_dssp             CCCCCCCCEEEESCCTTCCHHHHHHHHHTTS--CEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEE
T ss_pred             CcCCCCCEEEEECCCCCCCHHHHHHHHHhcC--CeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcE
Confidence            3445567999999999999999999999999  99999999999899999999999999999999999999      999


Q ss_pred             eCCcccEEeccCCC
Q psy8001         139 LHGRKPMVAYPTRN  152 (172)
Q Consensus       139 l~g~~l~v~~a~~~  152 (172)
                      |+|+.|+|.+++++
T Consensus        88 ~~g~~l~v~~a~~~  101 (111)
T 1x4h_A           88 LDGRQLKVDLAVTR  101 (111)
T ss_dssp             SSSCEEEEECCCCC
T ss_pred             EcCEEEEEEECCCC
Confidence            99999999999864

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

Probab=99.86  E-value=4.7e-21  Score=126.63  Aligned_cols=83  Identities=22%  Similarity=0.288  Sum_probs=77.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCC---CCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENAS---NGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~---~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      .+.++|||+|||+.+++++|+++|++||  .|..+.|+.++.   ++.++|||||+|.+.++|++|++.|||..|.|+.|
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   80 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVFSKVG--AIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKL   80 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTS--CEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEE
Confidence            3567999999999999999999999999  899999999886   56899999999999999999999999999999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      +|+++++.
T Consensus        81 ~V~~a~~~   88 (98)
T 2cpf_A           81 EVRISERA   88 (98)
T ss_dssp             EEECSSCS
T ss_pred             EEEEccCC
Confidence            99999764

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

Probab=99.86  E-value=3e-21  Score=128.44  Aligned_cols=85  Identities=21%  Similarity=0.337  Sum_probs=79.6

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .|..+.|+.++.++.++|||||+|.+.++|++|++.|||..|.|+.|+|
T Consensus         9 ~~~~~~l~v~nLp~~~t~~~l~~~f~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   86 (102)
T 1x5s_A            9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYG--QISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRV   86 (102)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHHHS--CCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcC--CeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            34567999999999999999999999999  8999999999989999999999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      .++++..
T Consensus        87 ~~a~~~~   93 (102)
T 1x5s_A           87 DQAGKSS   93 (102)
T ss_dssp             EEEECCC
T ss_pred             EECCCCC
Confidence            9997643

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

Probab=99.85  E-value=2.6e-21  Score=127.36  Aligned_cols=82  Identities=21%  Similarity=0.373  Sum_probs=78.1

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEE-EEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDV-KFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~-~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..+ +|+.++.++.++|||||+|.+.++|++|++.|||..|.|+.|+|+
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   81 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFG--VILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVS   81 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTS--CBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC--CeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            567999999999999999999999999  89899 999998899999999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +++++
T Consensus        82 ~a~~~   86 (96)
T 1x5t_A           82 YAFKK   86 (96)
T ss_dssp             ESCCC
T ss_pred             Eeccc
Confidence            99764

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

Probab=99.85  E-value=6.3e-21  Score=127.87  Aligned_cols=87  Identities=15%  Similarity=0.373  Sum_probs=80.5

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEec-CCCCCcccEEEEEeCCHHHHHHHHHHC-CCceeCCc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFEN-ASNGQSKGFCTVTLGSEESMSLVMERL-PTLELHGR  142 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~-~~~g~~~g~afv~f~~~~~a~~al~~l-~g~~l~g~  142 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..|.|+.+ +.++.++|||||+|.+.++|++||+.| |+..|.|+
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~   87 (107)
T 2cph_A           10 PKKQTTSKILVRNIPFQANQREIRELFSTFG--ELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGR   87 (107)
T ss_dssp             CCSSCCCCEEEESCCTTCCHHHHHHHHHTTS--CEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSC
T ss_pred             ccCCCCCEEEEeCCCCcCCHHHHHHHHHccC--CeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCC
Confidence            3345568999999999999999999999999  9999999998 789999999999999999999999999 99999999


Q ss_pred             ccEEeccCCCC
Q psy8001         143 KPMVAYPTRNV  153 (172)
Q Consensus       143 ~l~v~~a~~~~  153 (172)
                      .|+|+++++..
T Consensus        88 ~l~v~~a~~~~   98 (107)
T 2cph_A           88 RLVLEWADSEV   98 (107)
T ss_dssp             BCEEEECCCCC
T ss_pred             EEEEEeCCCCC
Confidence            99999998643

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

Probab=99.85  E-value=6.4e-21  Score=127.28  Aligned_cols=85  Identities=16%  Similarity=0.157  Sum_probs=79.3

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHh-cCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCce-eCCcc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRS-IGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLE-LHGRK  143 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~-~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~-l~g~~  143 (172)
                      .....++|||+|||+.+++++|+++|++ ||  .|..+.|+.++ +|.++|||||+|.+.++|++||+.|||.. |+|+.
T Consensus         5 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~G--~v~~v~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~   81 (104)
T 2dhg_A            5 SSGPEYSLFVGDLTPDVDDGMLYEFFVKVYP--SCRGGKVVLDQ-TGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKP   81 (104)
T ss_dssp             CSSCCCCEEEECCCTTCCHHHHHHHHHHHCT--TEEEEEEEECT-TCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHHhCC--CeEEEEEEECC-CCCccceEEEEECCHHHHHHHHHHccCCcccCCEe
Confidence            3445689999999999999999999999 99  99999999999 99999999999999999999999999999 99999


Q ss_pred             cEEeccCCCC
Q psy8001         144 PMVAYPTRNV  153 (172)
Q Consensus       144 l~v~~a~~~~  153 (172)
                      |+|+++++..
T Consensus        82 l~v~~a~~~~   91 (104)
T 2dhg_A           82 VRLSVAIPKA   91 (104)
T ss_dssp             CCCCBCCCCC
T ss_pred             EEEEEccCCC
Confidence            9999997643

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

Probab=99.85  E-value=1.4e-21  Score=129.96  Aligned_cols=82  Identities=15%  Similarity=0.210  Sum_probs=77.9

Q ss_pred             CCcceEEEcCCCC------CCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          68 SSHCNLYVGNLTW------WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        68 ~~~~~v~V~nL~~------~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      ...++|||+|||+      .+++++|+++|++||  .|..++|++++.+|+++|||||+|.+.++|++||+.|||..|.|
T Consensus         4 ~~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G--~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g   81 (100)
T 3ns6_A            4 GSDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAG--KVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDL   81 (100)
T ss_dssp             CGGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTS--CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSS
T ss_pred             CcCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcC--CEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCC
Confidence            3467899999999      999999999999999  99999999999899999999999999999999999999999999


Q ss_pred             -cccEEeccCC
Q psy8001         142 -RKPMVAYPTR  151 (172)
Q Consensus       142 -~~l~v~~a~~  151 (172)
                       +.|+|.++.+
T Consensus        82 ~r~l~V~~a~~   92 (100)
T 3ns6_A           82 KHRLFLYTMKD   92 (100)
T ss_dssp             SCBCEEEESHH
T ss_pred             CeEEEEEECch
Confidence             9999999964

>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=99.85  E-value=1e-20  Score=127.43  Aligned_cols=78  Identities=18%  Similarity=0.214  Sum_probs=72.3

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC-----
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG-----  141 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g-----  141 (172)
                      ....++|||+|||+.+++++|+++|.+||  .|..+.|+.+       |||||+|.+.++|++||+.|||..|.|     
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~~~i~~~-------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~   82 (108)
T 1x4c_A           12 RRSENRVVVSGLPPSGSWQDLKDHMREAG--DVCYADVYRD-------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGET   82 (108)
T ss_dssp             CSCCCEEEEESCCSSCCHHHHHHHHGGGS--CEEEEEEETT-------TEEEEEESSHHHHHHHHHHSSSEEEECTTSCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEeEEEEecC-------CEEEEEECCHHHHHHHHHHHCcCCccCCcCcc
Confidence            34568999999999999999999999999  8999999775       899999999999999999999999999     


Q ss_pred             cccEEeccCCCC
Q psy8001         142 RKPMVAYPTRNV  153 (172)
Q Consensus       142 ~~l~v~~a~~~~  153 (172)
                      +.|+|++++++.
T Consensus        83 ~~i~V~~a~~~~   94 (108)
T 1x4c_A           83 AYIRVKVDGPRS   94 (108)
T ss_dssp             EEEEEEESSCCS
T ss_pred             eEEEEEeCCCCC
Confidence            999999998743

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

Probab=99.85  E-value=2.2e-21  Score=129.13  Aligned_cols=84  Identities=21%  Similarity=0.318  Sum_probs=79.3

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .|..+.|+.++.++.++|||||+|.+.++|++|++.|||..|.|+.|+|
T Consensus         9 ~~~~~~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            9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFG--DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRV   86 (102)
T ss_dssp             CCCCSCEEEESCCSSCCHHHHHHHHTTTS--CCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhccC--CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            34567999999999999999999999999  8999999999889999999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .++++.
T Consensus        87 ~~a~~~   92 (102)
T 2cqb_A           87 NLAKPM   92 (102)
T ss_dssp             EECCCC
T ss_pred             EeCCCC
Confidence            999864

>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=99.85  E-value=4.5e-21  Score=129.34  Aligned_cols=85  Identities=18%  Similarity=0.235  Sum_probs=79.8

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..+.++.++.+|.++|||||+|.+.++|++|+..|||..|+|+.|+
T Consensus        22 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~   99 (110)
T 1oo0_B           22 RSVEGWILFVTSIHEEAQEDEIQEKFCDYG--EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQ   99 (110)
T ss_dssp             CBTTBEEEEEESCCTTCCHHHHHHHHGGGS--CEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEE
Confidence            345668999999999999999999999999  999999999998999999999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.+++++
T Consensus       100 V~~a~~~  106 (110)
T 1oo0_B          100 VDWCFVK  106 (110)
T ss_dssp             EEESEES
T ss_pred             EEEcccC
Confidence            9999753

>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=99.85  E-value=6.2e-21  Score=127.77  Aligned_cols=85  Identities=16%  Similarity=0.232  Sum_probs=79.4

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee---CCc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL---HGR  142 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l---~g~  142 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..++|+.++.+++++|||||+|.+.++|++|++.|||..+   .|+
T Consensus         9 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~   86 (106)
T 2dgp_A            9 KDHDAIKLFIGQIPRNLDEKDLKPLFEEFG--KIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNR   86 (106)
T ss_dssp             CCTTCEEEEEESCCTTCCHHHHHHHHHHHS--CCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCc
Confidence            344567999999999999999999999999  899999999998999999999999999999999999999988   899


Q ss_pred             ccEEeccCCC
Q psy8001         143 KPMVAYPTRN  152 (172)
Q Consensus       143 ~l~v~~a~~~  152 (172)
                      .|+|+++++.
T Consensus        87 ~l~v~~a~~~   96 (106)
T 2dgp_A           87 PIQVKPADSE   96 (106)
T ss_dssp             CCEEEECCCC
T ss_pred             eEEEEECCcc
Confidence            9999999764

>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=99.85  E-value=1.1e-20  Score=126.81  Aligned_cols=83  Identities=20%  Similarity=0.294  Sum_probs=78.3

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..+.|+.++ +|+++|||||+|.+.++|++||+.|||..|+|+.|
T Consensus        24 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l  100 (107)
T 3ulh_A           24 AGVETGGKLLVSNLDFGVSDADIQELFAEFG--TLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQYNGVPLDGRPM  100 (107)
T ss_dssp             CCCCCSEEEEEESCCTTCCHHHHHHHHHTTS--CEEEEEEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEECC-CCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEE
Confidence            3445678999999999999999999999999  89999999999 99999999999999999999999999999999999


Q ss_pred             EEeccC
Q psy8001         145 MVAYPT  150 (172)
Q Consensus       145 ~v~~a~  150 (172)
                      +|++++
T Consensus       101 ~V~~a~  106 (107)
T 3ulh_A          101 NIQLVT  106 (107)
T ss_dssp             EEEEEC
T ss_pred             EEEEeC
Confidence            999985

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

Probab=99.85  E-value=6e-21  Score=129.33  Aligned_cols=86  Identities=20%  Similarity=0.292  Sum_probs=79.7

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeE--------EEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFI--------DVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL  137 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~--------~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~  137 (172)
                      .....++|||+|||+.+++++|+++|++||  .|.        .++|+.++.+++++|||||+|.+.++|++||+.|||.
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~   88 (113)
T 2cpe_A           11 EDSDNSAIYVQGLNDSVTLDDLADFFKQCG--VVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGK   88 (113)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHHTTTS--CBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTC
T ss_pred             cCCCCCEEEEcCCCCCCCHHHHHHHHHhcC--CEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCC
Confidence            345668999999999999999999999999  787        6999999889999999999999999999999999999


Q ss_pred             eeCCcccEEeccCCCC
Q psy8001         138 ELHGRKPMVAYPTRNV  153 (172)
Q Consensus       138 ~l~g~~l~v~~a~~~~  153 (172)
                      .|.|+.|+|.++++..
T Consensus        89 ~~~g~~l~V~~a~~~~  104 (113)
T 2cpe_A           89 DFQGSKLKVSLARKKP  104 (113)
T ss_dssp             EETTEECEEECSSCCC
T ss_pred             ccCCCEEEEEECCCCC
Confidence            9999999999998653

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

Probab=99.85  E-value=1.9e-20  Score=127.45  Aligned_cols=85  Identities=20%  Similarity=0.379  Sum_probs=79.2

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..++|+.++.+++++|||||+|.+.++|++||+.|++ .|.|+.|
T Consensus        12 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l   88 (116)
T 2cqd_A           12 QKDTTFTKIFVGGLPYHTTDASLRKYFEGFG--DIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKA   88 (116)
T ss_dssp             CCSCSSSEEEEECCCSSCCHHHHHHHHHTTS--CEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEEC
T ss_pred             cCCCCCCEEEEeCCCCCCCHHHHHHHHHhCC--CeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEE
Confidence            3445668999999999999999999999999  899999999998999999999999999999999999998 8999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      +|++++..
T Consensus        89 ~V~~a~~~   96 (116)
T 2cqd_A           89 NVNLAYLG   96 (116)
T ss_dssp             EEEESTTT
T ss_pred             EEEEcccC
Confidence            99999764

>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=99.85  E-value=1.1e-20  Score=124.15  Aligned_cols=83  Identities=24%  Similarity=0.344  Sum_probs=77.5

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..++|+.++ ++.++|||||+|.+.++|++|++.|||..|.|+.|+
T Consensus        12 ~~~~~~~l~v~nlp~~~~~~~l~~~F~~~G--~i~~v~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   88 (95)
T 2ywk_A           12 QEEADRTVFVGNLEARVREEILYELFLQAG--PLTKVTICKDR-EGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPIN   88 (95)
T ss_dssp             CTTGGGEEEEECCCTTCCHHHHHHHHGGGS--CEEEEEEEECT-TSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcC--CEEEEEEEECC-CCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEE
Confidence            344568999999999999999999999999  89999999998 489999999999999999999999999999999999


Q ss_pred             EeccCC
Q psy8001         146 VAYPTR  151 (172)
Q Consensus       146 v~~a~~  151 (172)
                      |++++.
T Consensus        89 V~~a~~   94 (95)
T 2ywk_A           89 VSGPSS   94 (95)
T ss_dssp             EECCCC
T ss_pred             EEEcCC
Confidence            999864

>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=99.85  E-value=3.1e-21  Score=128.76  Aligned_cols=85  Identities=21%  Similarity=0.359  Sum_probs=79.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|++||  .|..+.++.++.+|.++|||||+|.+.++|++|++.|||..+.|+.|+|+
T Consensus         6 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G--~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   83 (104)
T 1p1t_A            6 RSLRSVFVGNIPYEATEEQLKDIFSEVG--PVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVD   83 (104)
T ss_dssp             HHHSCEEEESCCTTSCHHHHHHHHHTTS--CCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEE
T ss_pred             CCccEEEEeCCCCcCCHHHHHHHHHhcC--CeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEE
Confidence            3457899999999999999999999999  89999999999899999999999999999999999999999999999999


Q ss_pred             ccCCCCc
Q psy8001         148 YPTRNVL  154 (172)
Q Consensus       148 ~a~~~~~  154 (172)
                      ++++...
T Consensus        84 ~a~~~~~   90 (104)
T 1p1t_A           84 NAASEKN   90 (104)
T ss_dssp             ETTCTTH
T ss_pred             eCCCccc
Confidence            9987543

>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=99.85  E-value=2e-20  Score=125.04  Aligned_cols=82  Identities=18%  Similarity=0.276  Sum_probs=77.4

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC---ccc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG---RKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g---~~l  144 (172)
                      ...++|||+|||+.+++++|+++|++||  .|..+.|+.++ +|.++|||||+|.+.++|++||+.|||..+.|   +.|
T Consensus        13 ~~~~~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           13 GRDRKLFVGMLNKQQSEEDVLRLFQPFG--VIDECTVLRGP-DGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSL   89 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHTTTS--CEEEEEEEECS-SSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEECC-CCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccE
Confidence            4567999999999999999999999999  89999999998 89999999999999999999999999999998   999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      +|.++++.
T Consensus        90 ~V~~a~~~   97 (105)
T 2dnh_A           90 VVKFADTD   97 (105)
T ss_dssp             EEEESCSS
T ss_pred             EEEECccC
Confidence            99999764

>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=99.84  E-value=1.4e-20  Score=121.72  Aligned_cols=81  Identities=22%  Similarity=0.425  Sum_probs=75.4

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..++++.++.+|+++|||||+|.+.++|++|++ +++..|+|+.|.
T Consensus         7 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~   83 (87)
T 3s7r_A            7 NEEDAGKMFVGGLSWDTSKKDLKDYFTKFG--EVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLD-QKEHRLDGRVID   83 (87)
T ss_dssp             CCSCTTEEEEECCCTTCCHHHHHHHHTTTS--CEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHH-SSCEEETTEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCC--CEEEEEEeecCCCCccccEEEEEECCHHHHHHHHH-hCCCEECCEEEE
Confidence            345667999999999999999999999999  99999999999899999999999999999999997 588999999999


Q ss_pred             Eecc
Q psy8001         146 VAYP  149 (172)
Q Consensus       146 v~~a  149 (172)
                      |++|
T Consensus        84 v~~A   87 (87)
T 3s7r_A           84 PKKA   87 (87)
T ss_dssp             EEEC
T ss_pred             EEeC
Confidence            9875

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

Probab=99.84  E-value=1.3e-20  Score=123.08  Aligned_cols=84  Identities=25%  Similarity=0.308  Sum_probs=77.4

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..+.++.+  ++.++|||||+|.+.++|++|++.|||..|+|+.|+
T Consensus         4 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G--~v~~~~i~~~--~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~   79 (92)
T 2dgv_A            4 GSSGACQIFVRNLPFDFTWKMLKDKFNECG--HVLYADIKME--NGKSKGCGVVKFESPEVAERACRMMNGMKLSGREID   79 (92)
T ss_dssp             SSSSCCEEEECSCCTTCCHHHHHHHHHTTS--CEEEEEEEES--SSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEcc--CCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEE
Confidence            344668999999999999999999999999  8999999874  788999999999999999999999999999999999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |+++++..
T Consensus        80 v~~a~~~~   87 (92)
T 2dgv_A           80 VRIDRNAS   87 (92)
T ss_dssp             CEECSCCS
T ss_pred             EEEcCCCC
Confidence            99998643

>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=99.84  E-value=1.3e-20  Score=124.37  Aligned_cols=82  Identities=13%  Similarity=0.201  Sum_probs=75.7

Q ss_pred             CCCcceEEEcCCCCCCCHHHHH----HHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMS----DAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~----~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      ..++++|||+|||+.+++++|+    ++|++||  .|..++|+.++.+   +|||||+|.+.++|++||+.|||..|+|+
T Consensus         6 ~~~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G--~v~~v~i~~~~~~---rg~afV~f~~~~~A~~Ai~~l~g~~~~gr   80 (96)
T 2dgx_A            6 SGNGADVQVSNIDYRLSRKELQQLLQEAFARHG--KVKSVELSPHTDY---QLKAVVQMENLQDAIGAVNSLHRYKIGSK   80 (96)
T ss_dssp             CSSCEEEEEESCCTTSCHHHHHHHHHHHHHHHS--CEEEEEECSCCST---TCCEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHhccccC--cEEEEEEEeCCCC---CeEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            3456799999999999999999    9999999  9999999998755   88999999999999999999999999999


Q ss_pred             ccEEeccCCCC
Q psy8001         143 KPMVAYPTRNV  153 (172)
Q Consensus       143 ~l~v~~a~~~~  153 (172)
                      +|+|+++++..
T Consensus        81 ~l~V~~a~~~~   91 (96)
T 2dgx_A           81 KILVSLATGAS   91 (96)
T ss_dssp             EEEEEECCCSS
T ss_pred             EEEEEEcCCCC
Confidence            99999998653

>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=99.84  E-value=9e-21  Score=131.74  Aligned_cols=86  Identities=27%  Similarity=0.421  Sum_probs=80.5

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ....+.++|||+|||+.+++++|+++|++||  .|..+.|++++.++.++|||||+|.+.++|++||+.|||..|.|++|
T Consensus        41 ~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G--~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l  118 (129)
T 2kxn_B           41 ANPDPNCCLGVFGLSLYTTERDLREVFSKYG--PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRI  118 (129)
T ss_dssp             SCCCCSSCBCEETCTTSCCHHHHHHHHTTTS--CEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            3445668999999999999999999999999  99999999999899999999999999999999999999999999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      +|++++++
T Consensus       119 ~V~~a~~~  126 (129)
T 2kxn_B          119 RVDFSITK  126 (129)
T ss_dssp             EESCCSSS
T ss_pred             EEEEecCC
Confidence            99999764

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

Probab=99.84  E-value=3.3e-21  Score=134.12  Aligned_cols=84  Identities=14%  Similarity=0.270  Sum_probs=78.2

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEE--EEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc----eeC
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFID--VKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL----ELH  140 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~--~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~----~l~  140 (172)
                      .....+|||+|||+.+++++|+++|.+||  .|..  |+|++|+.+|+++|||||+|.+. +|++||+.|||.    .|+
T Consensus        20 ~~~~~~lfV~nL~~~~te~~L~~~F~~~G--~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~   96 (131)
T 2m2b_A           20 ENANDTIILRNLNPHSTMDSILGALAPYA--VLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTID   96 (131)
T ss_dssp             SCCCCEEEECSCCTTCCSHHHHHHHGGGC--CCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGG
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhC--CcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCC
Confidence            34567999999999999999999999999  7866  99999999999999999999999 999999999999    999


Q ss_pred             CcccEEeccCCCC
Q psy8001         141 GRKPMVAYPTRNV  153 (172)
Q Consensus       141 g~~l~v~~a~~~~  153 (172)
                      |+.|+|+++++..
T Consensus        97 gr~l~V~~a~~~~  109 (131)
T 2m2b_A           97 GKTINVEFAKGSK  109 (131)
T ss_dssp             GCCCCCEECCCSC
T ss_pred             CEEEEEEECCCCC
Confidence            9999999998754

>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=99.84  E-value=1.3e-20  Score=122.19  Aligned_cols=80  Identities=23%  Similarity=0.377  Sum_probs=76.4

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .++|||+|||+.+++++|+++|++||  .|..+.++.++.++.++|||||+|.+.++|++|+ .|||..+.|+.|+|.++
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a   82 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCG--SVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPK   82 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGC--CEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCC--CEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEc
Confidence            46899999999999999999999999  9999999999989999999999999999999999 89999999999999999


Q ss_pred             CCC
Q psy8001         150 TRN  152 (172)
Q Consensus       150 ~~~  152 (172)
                      ++.
T Consensus        83 ~~~   85 (89)
T 3ucg_A           83 RTN   85 (89)
T ss_dssp             TTT
T ss_pred             cCC
Confidence            763

>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=99.84  E-value=1.8e-20  Score=126.15  Aligned_cols=85  Identities=19%  Similarity=0.438  Sum_probs=78.3

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCC-eEEEEEE-ecCCCCCcccEEEEEeCCHHHHHHHHHHCC--CceeCCcc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPD-FIDVKFF-ENASNGQSKGFCTVTLGSEESMSLVMERLP--TLELHGRK  143 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~-~~~~~i~-~~~~~g~~~g~afv~f~~~~~a~~al~~l~--g~~l~g~~  143 (172)
                      ...++|||+|||+.+++++|+++|.+||  . |..+.++ .++.+|.++|||||+|.+.++|+.|++.||  +..+.|+.
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G--~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~   83 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEIAKVT--EGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQ   83 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHHHHHS--TTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBC
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHhc--CCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCe
Confidence            4568999999999999999999999999  8 9999998 788888999999999999999999999996  58999999


Q ss_pred             cEEeccCCCCc
Q psy8001         144 PMVAYPTRNVL  154 (172)
Q Consensus       144 l~v~~a~~~~~  154 (172)
                      |+|.++++...
T Consensus        84 l~V~~a~~~~~   94 (109)
T 2dis_A           84 IAVDWAEPEID   94 (109)
T ss_dssp             CEEEESCSSCS
T ss_pred             EEEEEcCCCCC
Confidence            99999987654

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

Probab=99.84  E-value=1.8e-20  Score=124.97  Aligned_cols=83  Identities=25%  Similarity=0.314  Sum_probs=77.7

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..+.|+.+  ++.++|||||+|.+.++|++||+.|||..|.|+.|+
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~--~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   86 (103)
T 2d9p_A           11 TRYQVVNLYVKNLDDGIDDERLRKAFSPFG--TITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLY   86 (103)
T ss_dssp             CCSSCCCEEEECCCTTCCHHHHHHTTTTTS--CEEEEEEEEC--SSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEcC--CCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEE
Confidence            344667999999999999999999999999  8999999988  889999999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |++++++
T Consensus        87 V~~a~~~   93 (103)
T 2d9p_A           87 VALAQRK   93 (103)
T ss_dssp             EEECSSC
T ss_pred             EEEeccc
Confidence            9999864

>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=99.84  E-value=1e-20  Score=122.39  Aligned_cols=82  Identities=12%  Similarity=0.197  Sum_probs=76.7

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCC-cccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQ-SKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~-~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ..++|||+|||+.+++++|+++|++||  .+..+.++.++.++. ++|||||+|.+.++|++|++.|||..++|+.|+|+
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   80 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYG--KIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITAT   80 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTS--CEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCC--CEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEE
Confidence            356899999999999999999999999  999999999987766 89999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      ++.+.
T Consensus        81 ~a~~~   85 (88)
T 4a8x_A           81 AVLAP   85 (88)
T ss_dssp             EECCC
T ss_pred             ECCCC
Confidence            99754

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

Probab=99.84  E-value=2.5e-20  Score=124.34  Aligned_cols=83  Identities=20%  Similarity=0.367  Sum_probs=77.4

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||   |..+.|+.++.+++++|||||+|.+.++|++|| .|||..|.|+.|+
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g---i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~   86 (103)
T 2dng_A           11 PTEPPYTAYVGNLPFNTVQGDIDAIFKDLS---IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLGDRSLR   86 (103)
T ss_dssp             CSSSCEEEEEESCCTTCCHHHHHHHTTTSC---EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEETTEECE
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhCC---ceEEEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeECCeEEE
Confidence            344568999999999999999999999998   889999999989999999999999999999999 7999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.++++.
T Consensus        87 V~~a~~~   93 (103)
T 2dng_A           87 VDIAEGR   93 (103)
T ss_dssp             EEECCCC
T ss_pred             EEEecCC
Confidence            9999764

>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=99.84  E-value=8.7e-21  Score=125.32  Aligned_cols=83  Identities=12%  Similarity=0.112  Sum_probs=77.2

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|.+||  .+..+.++.++.+|+++|||||+|.+.++|++||+.|||..|+|+.|+|+
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G--~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~   90 (98)
T 2cqp_A           13 PGPTIIKVQNMPFTVSIDEILDFFYGYQ--VIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLV   90 (98)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSC--CCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcC--CccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            4457999999999999999999999999  78778888888899999999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +++.+
T Consensus        91 ~a~~~   95 (98)
T 2cqp_A           91 LGSGP   95 (98)
T ss_dssp             ESSCS
T ss_pred             EcCCC
Confidence            99754

>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=99.84  E-value=1.7e-20  Score=135.37  Aligned_cols=86  Identities=17%  Similarity=0.232  Sum_probs=80.0

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+.+|++||  .|..|.|+.++.+|.++|||||+|.+.++|++||+.|||..|.|+.|
T Consensus        67 ~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l  144 (165)
T 1rk8_A           67 QRSVEGWILFVTSIHEEAQEDEIQEKFCDYG--EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTI  144 (165)
T ss_dssp             CCCC-CEEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHhhcCC--CEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            3445678999999999999999999999999  99999999999899999999999999999999999999999999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      .|.++.+.
T Consensus       145 ~V~~a~~~  152 (165)
T 1rk8_A          145 QVDWCFVK  152 (165)
T ss_dssp             EEEESEEC
T ss_pred             EEEEecCC
Confidence            99999764

>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=99.84  E-value=6.3e-21  Score=129.46  Aligned_cols=81  Identities=20%  Similarity=0.284  Sum_probs=77.0

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|+.||  .|..+.|+.++.+|.++|||||+|.+.++|++|| .|||..|+|+.|+|.
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~   99 (114)
T 2cq4_A           23 RDARTVFCMQLAARIRPRDLEDFFSAVG--KVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQ   99 (114)
T ss_dssp             HHHTEEEEESCCTTCCHHHHHHHHTTTS--CEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCC--CEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEE
Confidence            4567999999999999999999999999  9999999999988999999999999999999999 899999999999999


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      ++++
T Consensus       100 ~a~~  103 (114)
T 2cq4_A          100 ASQA  103 (114)
T ss_dssp             EHHH
T ss_pred             ecCC
Confidence            9864

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

Probab=99.84  E-value=5.2e-20  Score=124.76  Aligned_cols=83  Identities=18%  Similarity=0.257  Sum_probs=77.7

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|.+||  .|..+.|+.++ +++++|||||+|.+.++|++||+.|||..|.|+.|+|
T Consensus        12 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G--~i~~~~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v   88 (114)
T 2do0_A           12 GRLGSTVFVANLDYKVGWKKLKEVFSMAG--VVVRADILEDK-DGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHV   88 (114)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTS--CEEEEEEEECT-TCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEECC-CCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEE
Confidence            34567999999999999999999999999  99999999998 6999999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      ++++..
T Consensus        89 ~~a~~~   94 (114)
T 2do0_A           89 KMDERA   94 (114)
T ss_dssp             EECSCC
T ss_pred             EEcccC
Confidence            999753

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

Probab=99.84  E-value=1.8e-20  Score=125.45  Aligned_cols=84  Identities=12%  Similarity=0.173  Sum_probs=74.2

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCC--ceeCCcc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPT--LELHGRK  143 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g--~~l~g~~  143 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..+.|+.+      +|||||+|.+.++|+.|++.|++  ..|.|+.
T Consensus        12 ~~~~~~~LfV~nLp~~vte~dL~~lF~~fG--~V~~v~i~~~------kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~   83 (105)
T 1sjq_A           12 SGVPSRVIHIRKLPIDVTEGEVISLGLPFG--KVTNLLMLKG------KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQP   83 (105)
T ss_dssp             CCCCCCEEEECSCCTTSCHHHHHHHHHHHC--CEEEEEEETT------TTEEEEEESSHHHHHHHHHHHTTSCCEETTEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEcC------CCEEEEEECCHHHHHHHHHHhccCCceECCEE
Confidence            344567999999999999999999999999  9999999864      69999999999999999998864  7899999


Q ss_pred             cEEeccCCCCcchh
Q psy8001         144 PMVAYPTRNVLYQF  157 (172)
Q Consensus       144 l~v~~a~~~~~~~~  157 (172)
                      |+|.+++++.....
T Consensus        84 l~V~~A~~~~~~~~   97 (105)
T 1sjq_A           84 IYIQFSNHKELKTD   97 (105)
T ss_dssp             CCBCCCSSSSCCCT
T ss_pred             EEEEEcCCCCCCcc
Confidence            99999987654443

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

Probab=99.84  E-value=1.5e-20  Score=125.78  Aligned_cols=86  Identities=22%  Similarity=0.356  Sum_probs=79.9

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..+.|+.++.++.++|||||+|.+.++|++||+. |+..|.|+.|
T Consensus        11 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l   87 (105)
T 2dh8_A           11 SGADEIGKLFVGGLDWSTTQETLRSYFSQYG--EVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNI   87 (105)
T ss_dssp             CCSSSSSEECCBSCCTTCCHHHHHHHHHTTS--CEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECCEEE
Confidence            3445668999999999999999999999999  999999999998999999999999999999999998 9999999999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      .|++++++.
T Consensus        88 ~V~~a~~~~   96 (105)
T 2dh8_A           88 DPKPCTPRG   96 (105)
T ss_dssp             BCCCSCCSS
T ss_pred             EEEEccCCC
Confidence            999998653

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

Probab=99.83  E-value=8.4e-21  Score=119.42  Aligned_cols=75  Identities=23%  Similarity=0.327  Sum_probs=72.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      +|||+|||+.+++++|+++|++||  .+..+.++.++.+|.++|||||+|.+.++|++|++ |||..++|+.|+|++|
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFG--KVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTS--CCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcC--CEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEeC
Confidence            589999999999999999999999  89999999999899999999999999999999998 9999999999999976

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.83  E-value=6.6e-20  Score=122.17  Aligned_cols=83  Identities=19%  Similarity=0.311  Sum_probs=76.1

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..|.|+.++.+  ++|||||+|.+.++|++|++.|||..|.|+.|+
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~--~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   86 (103)
T 2cqi_A           11 DDGQPRTLYVGNLSRDVTEVLILQLFSQIG--PCKSCKMITEHTS--NDPYCFVEFYEHRDAAAALAAMNGRKILGKEVK   86 (103)
T ss_dssp             CSCCCCEEEEESCCTTCCHHHHHHHHHHHS--CEEEEEEECCCCS--SCCEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCCCCCEEEEeCCCccCCHHHHHHHHHhcC--CEeEEEEEecCCC--CCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEE
Confidence            344567999999999999999999999999  9999999998633  689999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.+++++
T Consensus        87 V~~a~~~   93 (103)
T 2cqi_A           87 VNWATTP   93 (103)
T ss_dssp             EEECCCT
T ss_pred             EEECCCC
Confidence            9999864

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

Probab=99.83  E-value=1.3e-19  Score=124.66  Aligned_cols=85  Identities=18%  Similarity=0.271  Sum_probs=79.7

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..++|+.++ +|+++|||||+|.+.++|++|++.|||..|+|+.|+
T Consensus        31 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~v~~v~i~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~  107 (124)
T 2kt5_A           31 GVETGAKLLVSNLDFGVSDADIQELFAEFG--TLKKAAVDYDR-SGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMD  107 (124)
T ss_dssp             CCSSCEEEEEESCCSSCCHHHHHHHHHTTS--CCSEEEEECCS-SSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeeEEEEEECC-CCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEE
Confidence            345668999999999999999999999999  89999999999 999999999999999999999999999999999999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |++|....
T Consensus       108 V~~a~~~~  115 (124)
T 2kt5_A          108 IQLVASQI  115 (124)
T ss_dssp             EEEECCTT
T ss_pred             EEEeCCCC
Confidence            99998754

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

Probab=99.83  E-value=1.6e-20  Score=127.87  Aligned_cols=82  Identities=21%  Similarity=0.332  Sum_probs=77.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|..||  .|..+.|+.++.++.++|||||+|.+.++|++||+. ++..|+|+.|+|.
T Consensus        25 ~~~~~l~V~nLp~~~te~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~  101 (116)
T 1x4b_A           25 EQFRKLFIGGLSFETTEESLRNYYEQWG--KLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPK  101 (116)
T ss_dssp             HHHTEEEEECCTTCCCHHHHHHHHTSSC--CCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEE
Confidence            4467999999999999999999999999  899999999998999999999999999999999997 9999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +++++
T Consensus       102 ~a~~~  106 (116)
T 1x4b_A          102 RAVAR  106 (116)
T ss_dssp             CCSSC
T ss_pred             ECCCC
Confidence            99764

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

Probab=99.83  E-value=3e-21  Score=124.34  Aligned_cols=81  Identities=19%  Similarity=0.282  Sum_probs=76.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      .+.++|||+|||+.+++++|+++|++||  .|..+.++.++.+|.++|||||+|.+.++|++|++.|||..|.|+.|+|+
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G--~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~   80 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYG--KIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQS   80 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTS--CEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeec
Confidence            3567999999999999999999999999  99999999999899999999999999999999999999999999999988


Q ss_pred             ccC
Q psy8001         148 YPT  150 (172)
Q Consensus       148 ~a~  150 (172)
                      +++
T Consensus        81 ~~~   83 (85)
T 1x4e_A           81 GPS   83 (85)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            765

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

Probab=99.83  E-value=2.6e-20  Score=124.56  Aligned_cols=80  Identities=15%  Similarity=0.219  Sum_probs=75.1

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ....+|||+|||+.+++++|+++|++||  .|..|.|++++. |.++|||||+|.+.++|+.||. ++|..|+|+.|.|.
T Consensus         9 ~~~~~lfV~~Lp~~~te~~L~~~F~~~G--~v~~v~i~~d~~-g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~   84 (103)
T 1s79_A            9 VKNRSVYIKGFPTDATLDDIKEWLEDKG--QVLNIQMRRTLH-KAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLIL   84 (103)
T ss_dssp             SGGGCEEEECCCTTCCHHHHHHHHHTSS--CEEEEEEECCCT-TSCCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcC--CEEEEEEEECCC-CCCccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEE
Confidence            3457999999999999999999999999  999999999986 9999999999999999999999 89999999999999


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      ++..
T Consensus        85 ~~~~   88 (103)
T 1s79_A           85 FKDD   88 (103)
T ss_dssp             EHHH
T ss_pred             EchH
Confidence            8853

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

Probab=99.83  E-value=6.8e-21  Score=130.35  Aligned_cols=86  Identities=17%  Similarity=0.196  Sum_probs=77.9

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCC---eEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPD---FIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK  143 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~---~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~  143 (172)
                      ....++|||+|||+.+++++|+++|+.||  .   |..|+|+.++. |+++|||||+|.+.++|++||+ ||+..|+|+.
T Consensus        14 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G--~~~~v~~v~i~~~~~-g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~   89 (118)
T 2db1_A           14 GGEGYVVKLRGLPWSCSIEDVQNFLSDCT--IHDGVAGVHFIYTRE-GRQSGEAFVELESEDDVKLALK-KDRESMGHRY   89 (118)
T ss_dssp             BCCCCEEEEESCCTTCCHHHHHHHTTTSC--BTTGGGGEEEEECSS-SCEEEEEEEEBSSHHHHHHHGG-GTTEEETTEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcC--CccCceeEEEEECCC-CCCCeEEEEEECCHHHHHHHHh-cCCCeECCeE
Confidence            34567999999999999999999999999  6   78999999985 9999999999999999999999 9999999999


Q ss_pred             cEEeccCCCCcch
Q psy8001         144 PMVAYPTRNVLYQ  156 (172)
Q Consensus       144 l~v~~a~~~~~~~  156 (172)
                      |+|.++......+
T Consensus        90 i~V~~a~~~~~~~  102 (118)
T 2db1_A           90 IEVFKSHRTEMDW  102 (118)
T ss_dssp             EEEEEECHHHHHH
T ss_pred             EEEEECCHHHHHH
Confidence            9999997654333

>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=99.83  E-value=3.8e-20  Score=123.63  Aligned_cols=82  Identities=21%  Similarity=0.306  Sum_probs=76.6

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCC-CCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASN-GQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~-g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ....++|||+|||+.+++++|+++|+.||   |..|.|+.++.+ ++++|||||+|.+.++|++|| .||+..|.|+.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G---i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~   87 (104)
T 1wi8_A           12 KSPPYTAFLGNLPYDVTEESIKEFFRGLN---ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIR   87 (104)
T ss_dssp             SSSCEEEEEESCCSSCCHHHHHHHTTTSC---EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEETTEECE
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHHCC---ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeCCcEEE
Confidence            34558999999999999999999999999   889999999887 899999999999999999999 8999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |++++++
T Consensus        88 V~~a~~~   94 (104)
T 1wi8_A           88 VDVADQA   94 (104)
T ss_dssp             EEECCCC
T ss_pred             EEEccCC
Confidence            9999864

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.83  E-value=8e-20  Score=121.76  Aligned_cols=85  Identities=27%  Similarity=0.356  Sum_probs=77.1

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..+.|+.++.  .++|||||+|.+.++|++|++.|||..|+|+.|
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G--~v~~v~i~~~~~--~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   85 (103)
T 2cq3_A           10 ESKSTPKRLHVSNIPFRFRDPDLRQMFGQFG--KILDVEIIFNER--GSKGFGFVTFENSADADRAREKLHGTVVEGRKI   85 (103)
T ss_dssp             CCSCCCCEEEEESCCTTCCHHHHHHHGGGTS--CEEEEEEECCTT--TTCCEEEEEESCHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEecCC--CCcEEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            3344567999999999999999999999999  999999998863  389999999999999999999999999999999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      +|.+++++.
T Consensus        86 ~v~~a~~~~   94 (103)
T 2cq3_A           86 EVNNATARV   94 (103)
T ss_dssp             EEEECCSSC
T ss_pred             EEEEcccCC
Confidence            999998753

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

Probab=99.83  E-value=2.8e-20  Score=125.56  Aligned_cols=84  Identities=20%  Similarity=0.387  Sum_probs=75.3

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|+.||  .|..+.|+.++.+|.++|||||+|.+.++|++||+.+ +..|+|+.|+
T Consensus        21 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G--~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g~~l~   97 (109)
T 2rs2_A           21 MGSSGCKMFIGGLSWQTTQEGLREYFGQFG--EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELDSKTID   97 (109)
T ss_dssp             -----CCEEEESCCTTCCHHHHHHHHTTTS--CEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEETTEEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHccC--CeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCCCEEEE
Confidence            344567999999999999999999999999  9999999999989999999999999999999999975 5999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.++.++
T Consensus        98 V~~a~~~  104 (109)
T 2rs2_A           98 PKVAFPR  104 (109)
T ss_dssp             EEECCCC
T ss_pred             EEEccCC
Confidence            9999764

>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=99.83  E-value=5.8e-21  Score=124.26  Aligned_cols=80  Identities=25%  Similarity=0.426  Sum_probs=73.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      ++|||+|||..+++++|+++|++||  .+..+.+++++.+|.++|||||+|.+.+ |++|+..|||..++|+.|+|++|.
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~   78 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFG--KVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEAN   78 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHT--CCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC-
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcC--CEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcC
Confidence            5799999999999999999999999  8999999999989999999999999999 999999999999999999999998


Q ss_pred             CCC
Q psy8001         151 RNV  153 (172)
Q Consensus       151 ~~~  153 (172)
                      +..
T Consensus        79 ~~~   81 (90)
T 2ki2_A           79 PKK   81 (90)
T ss_dssp             ---
T ss_pred             CCC
Confidence            654

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.83  E-value=7.3e-21  Score=129.34  Aligned_cols=86  Identities=20%  Similarity=0.205  Sum_probs=78.4

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCe-EEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDF-IDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~-~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...++|||+|||+.+++++|+++|+.||  .+ ..|+|++++ +|+++|||||+|.+.++|++||+. |+..|+|+.|.|
T Consensus        13 ~~~~~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           13 SAKVCAHITNIPFSITKMDVLQFLEGIP--VDENAVHVLVDN-NGQGLGQALVQFKNEDDARKSERL-HRKKLNGREAFV   88 (114)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSC--CCSTTEEECCCT-TSSCSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEE
T ss_pred             CCccEEEEeCcCCcCCHHHHHHHHHhCC--CcCCeEEEEECC-CCCcceEEEEEECCHHHHHHHHHh-CCCccCCeEEEE
Confidence            4567999999999999999999999999  78 789999999 999999999999999999999996 999999999999


Q ss_pred             eccCCCCcchh
Q psy8001         147 AYPTRNVLYQF  157 (172)
Q Consensus       147 ~~a~~~~~~~~  157 (172)
                      .++.+......
T Consensus        89 ~~a~~~~~~~~   99 (114)
T 2cpy_A           89 HVVTLEDMREI   99 (114)
T ss_dssp             EEECHHHHHHH
T ss_pred             EECCHHHHHHH
Confidence            99987554444

>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=99.83  E-value=9.9e-21  Score=124.29  Aligned_cols=81  Identities=14%  Similarity=0.148  Sum_probs=75.2

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|.+||  .+..+.++.++.+++++|||||+|.+.++|++||+.|||..|.|+.|+|++
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~   91 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQ--VIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSG   91 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSC--BCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC--CccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEe
Confidence            357999999999999999999999999  888888888888999999999999999999999999999999999999998


Q ss_pred             cCC
Q psy8001         149 PTR  151 (172)
Q Consensus       149 a~~  151 (172)
                      ++.
T Consensus        92 a~s   94 (95)
T 2ek1_A           92 PSS   94 (95)
T ss_dssp             CC-
T ss_pred             ccC
Confidence            863

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

Probab=99.83  E-value=2.9e-20  Score=125.43  Aligned_cols=85  Identities=27%  Similarity=0.343  Sum_probs=77.2

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||..+++++|+++|++||  .|..+.++.++  +.++|||||+|.+.++|++|++.|||..|+|+.|
T Consensus        24 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G--~i~~v~i~~~~--~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l   99 (109)
T 2err_A           24 ENKSQPKRLHVSNIPFRFRDPDLRQMFGQFG--KILDVEIIFNE--RGSKGFGFVTFENSADADRAREKLHGTVVEGRKI   99 (109)
T ss_dssp             SCTTCCCEEEEESCCTTCCHHHHHHHGGGTC--CCSCEEECCBT--TBCTTEEEEECCCSHHHHHHHHHHTTCEETTEEC
T ss_pred             cCCCCCCEEEEECCCCcCCHHHHHHHHHhcC--CEEEEEEEECC--CCCceEEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            3445667999999999999999999999999  89999999885  4489999999999999999999999999999999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      +|++++++.
T Consensus       100 ~V~~a~~~~  108 (109)
T 2err_A          100 EVNNATARV  108 (109)
T ss_dssp             EEEECCCSC
T ss_pred             EEEECCCCc
Confidence            999998753

>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=99.83  E-value=1.6e-19  Score=120.27  Aligned_cols=82  Identities=27%  Similarity=0.385  Sum_probs=76.5

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|.+||  .|..+.|+.++.+|.++|||||+|.+.++|++||+  ++..|+|+.|.|
T Consensus        12 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g~~l~v   87 (103)
T 2cqg_A           12 VQKTSDLIVLGLPWKTTEQDLKEYFSTFG--EVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS--QRHMIDGRWCDC   87 (103)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHHGGGS--CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH--SCEEETTEEEEE
T ss_pred             cCCCCEEEEEcCCCcCCHHHHHHHHHhcC--CeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH--cCCeeCCeEEEE
Confidence            34567899999999999999999999999  99999999999899999999999999999999999  578999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .++.++
T Consensus        88 ~~a~~~   93 (103)
T 2cqg_A           88 KLPNSK   93 (103)
T ss_dssp             ECCCTT
T ss_pred             EecCCC
Confidence            999764

>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=99.82  E-value=1.4e-19  Score=122.76  Aligned_cols=83  Identities=17%  Similarity=0.347  Sum_probs=76.9

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee-------
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL-------  139 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l-------  139 (172)
                      ....++|||+|||+.+++++|+++|.+||  .|..++|+.++ ++.++|||||+|.+.++|++||+.|||..|       
T Consensus        22 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~~~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~   98 (114)
T 1x5o_A           22 EQDPTNLYISNLPLSMDEQELENMLKPFG--QVISTRILRDS-SGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVS   98 (114)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHTTTTTS--CEEEEEEEECS-SSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEECC-CCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCcccc
Confidence            34567999999999999999999999999  89999999999 999999999999999999999999999999       


Q ss_pred             -CCcccEEeccCCC
Q psy8001         140 -HGRKPMVAYPTRN  152 (172)
Q Consensus       140 -~g~~l~v~~a~~~  152 (172)
                       .++.|.|.++++.
T Consensus        99 ~~~~~l~v~~a~p~  112 (114)
T 1x5o_A           99 APTEPLLCKFSGPS  112 (114)
T ss_dssp             CCSSCBEEEECCCS
T ss_pred             CCCCceeEEccCCC
Confidence             5777999999754

>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=99.82  E-value=4.9e-20  Score=131.75  Aligned_cols=83  Identities=22%  Similarity=0.276  Sum_probs=79.0

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|++||  .|..+.|+.++.+|.++|||||+|.+.++|++||+.|||..|+|+.|+|.
T Consensus        68 ~~~~~l~v~nl~~~~~~~~l~~~F~~~G--~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  145 (158)
T 2kn4_A           68 EGMTSLKVDNLTYRTSPDTLRRVFEKYG--RVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQ  145 (158)
T ss_dssp             CBCCEEEEESCCTTCCHHHHHHHHHHHS--CEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            4567999999999999999999999999  99999999999899999999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      ++++.
T Consensus       146 ~a~~~  150 (158)
T 2kn4_A          146 MARYG  150 (158)
T ss_dssp             EECCS
T ss_pred             ECCCC
Confidence            99764

>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=99.82  E-value=3.5e-20  Score=125.40  Aligned_cols=86  Identities=13%  Similarity=0.108  Sum_probs=77.7

Q ss_pred             CCcceEEEcCCCCCCCHHHHH---HHHHhcCCCCeEEEEEEecCCCC---CcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          68 SSHCNLYVGNLTWWTTEADMS---DAIRSIGVPDFIDVKFFENASNG---QSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~---~~f~~~g~~~~~~~~i~~~~~~g---~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      ...++|||+|||+.+++++|+   ++|++||  .|..+.|+.++.++   .++|||||+|.+.++|++||+.|||..|+|
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G--~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~g   90 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFG--KIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDG   90 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTS--CEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhccC--CEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECC
Confidence            345799999999999999999   9999999  99999999987654   456999999999999999999999999999


Q ss_pred             cccEEeccCCCCcc
Q psy8001         142 RKPMVAYPTRNVLY  155 (172)
Q Consensus       142 ~~l~v~~a~~~~~~  155 (172)
                      +.|+|.+++++...
T Consensus        91 r~l~V~~a~~k~~~  104 (111)
T 2cpi_A           91 RTLKASLGTTKYCS  104 (111)
T ss_dssp             EEEEEESCCCCSCS
T ss_pred             EEEEEEeccccccc
Confidence            99999999876533

>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=99.82  E-value=6.7e-21  Score=131.32  Aligned_cols=84  Identities=14%  Similarity=0.135  Sum_probs=76.0

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|..||  .|..+.++.+..+|+++|||||+|.+.++|++||+ |||..|+|+.|.|
T Consensus        22 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G--~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V   98 (124)
T 1wel_A           22 HEAGFCVYLKGLPFEAENKHVIDFFKKLD--IVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQV   98 (124)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHSCSSC--BCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC--CccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEE
Confidence            44568999999999999999999999999  77776666666799999999999999999999999 9999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      .++.+..
T Consensus        99 ~~a~~~~  105 (124)
T 1wel_A           99 HPITKKG  105 (124)
T ss_dssp             EEECHHH
T ss_pred             EECCHHH
Confidence            9997644

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

Probab=99.82  E-value=1.3e-19  Score=126.87  Aligned_cols=81  Identities=22%  Similarity=0.342  Sum_probs=76.2

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      .....+|||+|||..+++++|+++|++||  .|..++++.++.+++++|||||+|.+.++|++|++.|||..|.|+.|+|
T Consensus        60 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v  137 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFG--DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRV  137 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGGS--CEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEE
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhcC--CEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            34567999999999999999999999999  9999999999889999999999999999999999999999999999999


Q ss_pred             ecc
Q psy8001         147 AYP  149 (172)
Q Consensus       147 ~~a  149 (172)
                      ++|
T Consensus       138 ~~A  140 (140)
T 2ku7_A          138 NLA  140 (140)
T ss_dssp             EC-
T ss_pred             EeC
Confidence            986

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

Probab=99.82  E-value=1.1e-19  Score=118.53  Aligned_cols=81  Identities=14%  Similarity=0.238  Sum_probs=74.9

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|+.|+   +..++|+++ .+|+++|||||+|.+.++|++||+ |||..|+|+.|.|
T Consensus         7 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~~---i~~v~i~~~-~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v   81 (91)
T 2dgw_A            7 GTTCHTVKLRGAPFNVTEKNVMEFLAPLK---PVAIRIVRN-AHGNKTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEV   81 (91)
T ss_dssp             CCCCCEEEEECCCSSCCHHHHHHHHTTSC---CSEEEEEEC-TTSCEEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEE
T ss_pred             CCCccEEEEECCCCCCCHHHHHHHHhhCC---ceEEEEEEC-CCCCCceEEEEEECCHHHHHHHHH-hCCceeCCcEEEE
Confidence            34567999999999999999999999995   778999998 589999999999999999999999 9999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .+++++
T Consensus        82 ~~a~~~   87 (91)
T 2dgw_A           82 FREKSG   87 (91)
T ss_dssp             EEESSC
T ss_pred             EECCcC
Confidence            999765

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

Probab=99.82  E-value=6.2e-20  Score=126.23  Aligned_cols=81  Identities=20%  Similarity=0.368  Sum_probs=76.9

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..+.++.++.+|.++|||||+|.+.++|++|| .|||..|+|+.|+|++
T Consensus        35 ~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~  111 (124)
T 2jwn_A           35 DKRSVYVGNVDYGSTAQDLEAHFSSCG--SINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLP  111 (124)
T ss_dssp             HHTEEEEEEECTTCCHHHHHHHHHTTS--CEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEE
Confidence            457999999999999999999999999  9999999999889999999999999999999999 7999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      ++..
T Consensus       112 a~~~  115 (124)
T 2jwn_A          112 KRTN  115 (124)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            9753

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

Probab=99.82  E-value=1.3e-20  Score=131.84  Aligned_cols=86  Identities=21%  Similarity=0.264  Sum_probs=80.2

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|++||  .|..+.|+.++.+++++|||||+|.+.++|++||+.|||..|.|+.|
T Consensus        42 ~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G--~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l  119 (135)
T 2lea_A           42 PDVEGMTSLKVDNLTYRTSPDTLRRVFEKYG--RVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGREL  119 (135)
T ss_dssp             SSGGGCCCEEEECCCSSCHHHHHHHHHGGGS--CCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence            3445567999999999999999999999999  89999999999899999999999999999999999999999999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      +|+++++.
T Consensus       120 ~V~~a~~~  127 (135)
T 2lea_A          120 RVQMARYG  127 (135)
T ss_dssp             EEEECCCC
T ss_pred             EEEECCCC
Confidence            99999764

>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=99.82  E-value=1.1e-20  Score=125.46  Aligned_cols=84  Identities=19%  Similarity=0.278  Sum_probs=74.7

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecC-CCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENA-SNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~-~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      .....++|||+|||+.+++++|+++|++||   +..+.|+.++ .+|+++|||||+|.+.++|++|| .|||..|+|+.|
T Consensus        15 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G---i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l   90 (100)
T 2j76_E           15 PKSPPYTAFLGNLPYDVTEESIKEFFRGLN---ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLGNRRI   90 (100)
T ss_dssp             -----CEEEESCCSSCCSSSHHHHHSCSSC---EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBTTBCC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcC---CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEECCeEE
Confidence            344568999999999999999999999999   8899999988 68999999999999999999999 799999999999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      +|+++++++
T Consensus        91 ~V~~a~~~~   99 (100)
T 2j76_E           91 RVDVADQAQ   99 (100)
T ss_dssp             CCEECCCSC
T ss_pred             EEEeccCCC
Confidence            999998653

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

Probab=99.82  E-value=1.5e-20  Score=118.73  Aligned_cols=76  Identities=20%  Similarity=0.424  Sum_probs=72.9

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ++|||+|||+.+++++|+++|++||  .+..+.++.++.+|+++|||||+|.+.++|++|++.++ ..++|+.|+|++|
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G--~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFG--EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTS--CCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEec
Confidence            4799999999999999999999999  89999999999899999999999999999999999999 9999999999986

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.82  E-value=9.3e-20  Score=121.17  Aligned_cols=81  Identities=25%  Similarity=0.334  Sum_probs=74.5

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|+.++     .+.++.++.++.++|||||+|.+.++|++||+.|||..|.|+.|+|
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~-----~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V   86 (102)
T 2fc8_A           12 SQPSKTLFVKGLSEDTTEETLKESFDGSV-----RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTL   86 (102)
T ss_dssp             SCCCSSEEEECCCTTCCHHHHHHTSTTCS-----EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCEEEEeCCCCccCHHHHHHHhcCCe-----EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence            44567999999999999999999999776     6778888889999999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      ++++++
T Consensus        87 ~~a~~~   92 (102)
T 2fc8_A           87 DWAKPK   92 (102)
T ss_dssp             EECCCC
T ss_pred             EEecCC
Confidence            999864

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

Probab=99.82  E-value=6e-20  Score=123.03  Aligned_cols=81  Identities=12%  Similarity=0.131  Sum_probs=74.1

Q ss_pred             CCCcceEEEcCCCCCC------CHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC
Q psy8001          67 SSSHCNLYVGNLTWWT------TEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH  140 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~------~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~  140 (172)
                      ....++|||+|||+.+      ++++|+++|++||  .|..+.|+  +.+|+++|||||+|.+.++|++||+.|||..|+
T Consensus        12 ~~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G--~v~~v~i~--~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~   87 (105)
T 2nlw_A           12 DGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFG--KITNDFYP--EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLD   87 (105)
T ss_dssp             CSCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGS--CEEEEECC--CBTTBSCCEEEEEECSSSHHHHHHHHCSSEECS
T ss_pred             CCCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCC--CEEEEEee--CCCCCeeeEEEEEECCHHHHHHHHHHhCCcccC
Confidence            3446799999999999      7899999999999  89999987  358899999999999999999999999999999


Q ss_pred             Cc-ccEEeccCC
Q psy8001         141 GR-KPMVAYPTR  151 (172)
Q Consensus       141 g~-~l~v~~a~~  151 (172)
                      |+ .|+|.++..
T Consensus        88 g~~~l~V~~a~~   99 (105)
T 2nlw_A           88 KQHTFRVNLFTD   99 (105)
T ss_dssp             TTCEEEEECSCC
T ss_pred             CCceEEEEEcch
Confidence            98 999999964

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.82  E-value=3.2e-19  Score=120.04  Aligned_cols=82  Identities=18%  Similarity=0.306  Sum_probs=74.3

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..+.|..   ++.++|||||+|.+.++|++||+.||+..|.|+.|+
T Consensus        18 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~v~~~~i~~---~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   92 (109)
T 1x4a_A           18 AGNNDCRIYVGNLPPDIRTKDIEDVFYKYG--AIRDIDLKN---RRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLR   92 (109)
T ss_dssp             CCCCSSEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEECC---SSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEE---CCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence            344567999999999999999999999999  899998855   455799999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |+++++.
T Consensus        93 V~~a~~~   99 (109)
T 1x4a_A           93 VEFPRSG   99 (109)
T ss_dssp             EECCCCC
T ss_pred             EEEcccC
Confidence            9999764

>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=99.82  E-value=5.1e-20  Score=125.00  Aligned_cols=84  Identities=15%  Similarity=0.186  Sum_probs=71.8

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|.+||  .|..+.+..+..+++++|||||+|.+.++|++||+.|||..|.|+.|+|
T Consensus        22 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G--~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v   99 (115)
T 2cpx_A           22 GEPNKVLYLKNLSPRVTERDLVSLFARFQ--EKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVI   99 (115)
T ss_dssp             CSCCSEEEEECCCTTCCHHHHHHHTHHHH--HSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhC--CccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEE
Confidence            34567999999999999999999999999  6633222222227889999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .++++.
T Consensus       100 ~~a~~~  105 (115)
T 2cpx_A          100 EFGKNK  105 (115)
T ss_dssp             EECCCC
T ss_pred             EEccCC
Confidence            999864

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

Probab=99.81  E-value=1.6e-19  Score=125.02  Aligned_cols=82  Identities=12%  Similarity=0.219  Sum_probs=73.3

Q ss_pred             CCCcceEEEcCCCCCCCHHHHH----HHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMS----DAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~----~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      ..+.++|||+||++.+++++|+    ++|++||  .|..|.+..   +++++|||||+|.+.++|+.|++.|||..|.|+
T Consensus        26 ~~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G--~I~~v~i~~---~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr  100 (127)
T 2a3j_A           26 TEPSQVVLITNINPEVPKEKLQALLYALASSQG--DILDIVVDL---SDDNSGKAYIVFATQESAQAFVEAFQGYPFQGN  100 (127)
T ss_dssp             CSCCSEEEEESCCTTSCHHHHHHHHHHHHHHHS--CEEEEEECC---CCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHhccCC--CeEEEEecc---CCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCC
Confidence            3456799999999999999876    6999999  898887643   678999999999999999999999999999999


Q ss_pred             ccEEeccCCCC
Q psy8001         143 KPMVAYPTRNV  153 (172)
Q Consensus       143 ~l~v~~a~~~~  153 (172)
                      .|+|.+++.+.
T Consensus       101 ~l~V~~a~~~~  111 (127)
T 2a3j_A          101 PLVITFSETPQ  111 (127)
T ss_dssp             CCEEEECCCCC
T ss_pred             EEEEEEccCcc
Confidence            99999998654

>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=99.81  E-value=1.2e-20  Score=126.84  Aligned_cols=84  Identities=15%  Similarity=0.152  Sum_probs=77.0

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCC---eEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPD---FIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~---~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      .....++|||+|||+.+++++|+++|+.||  .   +..|+|+.++. |+++|||||+|.+.++|++||+ ||+..|+|+
T Consensus         7 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~g--~~~~v~~v~i~~~~~-g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr   82 (107)
T 2lmi_A            7 EVDDVFLIRAQGLPWSCTMEDVLNFFSDCR--IRNGENGIHFLLNRD-GKRRGDALIEMESEQDVQKALE-KHRMYMGQR   82 (107)
T ss_dssp             CCSSCCEEEEECCCSSCCSHHHHHHTTTSC--BTTTTTTEECCCCTT-STTCSEEEEEBSSHHHHHHHHT-TTTCCSSSS
T ss_pred             CCCCccEEEEeCCCCCCCHHHHHHHHHhcC--CcCCcceEEEEECCC-CCEeeEEEEEECCHHHHHHHHH-hCcceeCCe
Confidence            345678999999999999999999999998  6   78999999986 9999999999999999999999 999999999


Q ss_pred             ccEEeccCCCC
Q psy8001         143 KPMVAYPTRNV  153 (172)
Q Consensus       143 ~l~v~~a~~~~  153 (172)
                      .|+|.++.+..
T Consensus        83 ~i~V~~a~~~~   93 (107)
T 2lmi_A           83 YVEVYEINNED   93 (107)
T ss_dssp             CCCCEECCHHH
T ss_pred             EEEEEECCHHH
Confidence            99999997643

>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=99.81  E-value=8.1e-20  Score=122.20  Aligned_cols=83  Identities=11%  Similarity=0.126  Sum_probs=75.5

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEE-EEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFID-VKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~-~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ....++|||+|||+.+++++|+++|.+||  .+.. +.|+.+ .+|+++|||||+|.+.++|++||+. |+..|+||.|.
T Consensus        12 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G--~v~~~v~i~~~-~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~   87 (104)
T 1wg5_A           12 TANDGFVRLRGLPFGCSKEEIVQFFSGLE--IVPNGMTLPVD-FQGRSTGEAFVQFASQEIAEKALKK-HKERIGHRYIE   87 (104)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHTTTCC--EEEEEEECCBC-SSSCBCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CcceeEEEEEC-CCCCcceEEEEEECCHHHHHHHHHh-CcchhCCcEEE
Confidence            34567999999999999999999999999  7876 888888 5899999999999999999999997 99999999999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |.++.+..
T Consensus        88 v~~~~~~~   95 (104)
T 1wg5_A           88 IFKSSRAE   95 (104)
T ss_dssp             EEEECTTT
T ss_pred             EEECCHHH
Confidence            99987643

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

Probab=99.81  E-value=1.7e-20  Score=124.64  Aligned_cols=81  Identities=23%  Similarity=0.323  Sum_probs=73.9

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|++||  .+.. .++.++.+|.++|||||+|.+.++|++||+ |||..|.|+.|+|.
T Consensus        15 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~   90 (101)
T 1fj7_A           15 TTPFNLFIGNLNPNKSVAELKVAISELF--AKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLE   90 (101)
T ss_dssp             SCSEEEEEECCCTTSCHHHHHHHHHHHH--HHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhC--Ccce-EEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEE
Confidence            3467999999999999999999999999  7766 667777788999999999999999999999 99999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +++++
T Consensus        91 ~a~~~   95 (101)
T 1fj7_A           91 KPKGR   95 (101)
T ss_dssp             CCSCC
T ss_pred             EcCCC
Confidence            99764

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

Probab=99.81  E-value=8.4e-20  Score=117.62  Aligned_cols=73  Identities=14%  Similarity=0.138  Sum_probs=68.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..-|||+||++.+++++|+++|.+||  .|..++++.      ++|||||+|.+.++|++|++.||+..+.|+.|+|++|
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G--~V~~~~l~~------~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A   78 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHG--PLVSFHPYL------NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESP   78 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHS--CEEEEEEET------TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECC
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhC--CEEEEEEcC------CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEEC
Confidence            45799999999999999999999999  999999865      5899999999999999999999999999999999998


Q ss_pred             C
Q psy8001         150 T  150 (172)
Q Consensus       150 ~  150 (172)
                      .
T Consensus        79 ~   79 (89)
T 2wbr_A           79 S   79 (89)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.81  E-value=3.9e-20  Score=129.57  Aligned_cols=84  Identities=18%  Similarity=0.237  Sum_probs=77.1

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCC---eEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPD---FIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~---~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      +.....++|||+|||+.+++++|+++|++||  .   +..|+|++++. |+++|||||+|.+.++|++||+ ||+..|+|
T Consensus        39 ~~~~~~~~lfVgnLp~~~te~dL~~~F~~~G--~v~~v~~v~i~~d~~-g~srG~aFV~F~~~e~a~~Al~-~~g~~l~g  114 (136)
T 2hgl_A           39 PEGGEGFVVKLRGLPWSCSVEDVQNFLSDCT--IHDGAAGVHFIYTRE-GRQSGEAFVELGSEDDVKMALK-KDRESMGH  114 (136)
T ss_dssp             SSCCTTCEEEEESCCTTCCHHHHHHHTTTCC--CSSSSTTEEEEECSS-SCEEEEEEEECSSHHHHHHHHT-TTEEESSS
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhC--CcCceeEEEEEECCC-CCCCeEEEEEECCHHHHHHHHh-cCCCEECC
Confidence            3345668999999999999999999999999  6   78999999986 9999999999999999999999 99999999


Q ss_pred             cccEEeccCCC
Q psy8001         142 RKPMVAYPTRN  152 (172)
Q Consensus       142 ~~l~v~~a~~~  152 (172)
                      |.|+|.++.+.
T Consensus       115 r~i~V~~a~~~  125 (136)
T 2hgl_A          115 RYIEVFKSHRT  125 (136)
T ss_dssp             SEEEEEECCHH
T ss_pred             EEEEEEECChH
Confidence            99999998654

>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=99.81  E-value=7.7e-20  Score=122.03  Aligned_cols=80  Identities=14%  Similarity=0.191  Sum_probs=73.7

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|++||  .+ .|+|++++ +|+++|||||+|.+.++|++||+ +|+..|+||.|+|.
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G--~~-~v~i~~d~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~   87 (102)
T 1wez_A           13 TTGHCVHMRGLPYRATENDIYNFFSPLN--PM-RVHIEIGP-DGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVELF   87 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCC--CS-EEEEEESS-SSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcC--ce-EEEEEECC-CCCEeeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEE
Confidence            4457999999999999999999999999  45 99999998 89999999999999999999995 79999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      ++.+.
T Consensus        88 ~~~~~   92 (102)
T 1wez_A           88 LNSTA   92 (102)
T ss_dssp             EECCC
T ss_pred             ECCCC
Confidence            88653

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.81  E-value=7.2e-20  Score=124.66  Aligned_cols=76  Identities=18%  Similarity=0.244  Sum_probs=66.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc----
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK----  143 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~----  143 (172)
                      ...++|||+|||+.+++++|+++|.+||  .|..+.|+.+       |||||+|.+.++|++||+.|||..|+|++    
T Consensus        14 r~~~~l~V~nLp~~~t~~~l~~~F~~~G--~v~~~~i~~~-------g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~   84 (115)
T 3beg_B           14 RSENRVVVSGLPPSGSWQDLKDHMREAG--DVCYADVYRD-------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETA   84 (115)
T ss_dssp             ---CCEEEEECCSSCCTTHHHHHHGGGS--CEEEEEECTT-------SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEecC-------CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeE
Confidence            4568999999999999999999999999  8999998765       89999999999999999999999999999    


Q ss_pred             -cEEeccCCC
Q psy8001         144 -PMVAYPTRN  152 (172)
Q Consensus       144 -l~v~~a~~~  152 (172)
                       |+|..+.+.
T Consensus        85 ~i~v~~~~~~   94 (115)
T 3beg_B           85 YIRVKVDGPR   94 (115)
T ss_dssp             BCEEEECC--
T ss_pred             EEEeccCCCC
Confidence             777777653

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

Probab=99.80  E-value=4.9e-19  Score=115.18  Aligned_cols=77  Identities=21%  Similarity=0.345  Sum_probs=71.2

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .|..+.++        +|||||+|.+.++|++|++.|||..|.|++|+|
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~~~--------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   74 (90)
T 2dnq_A            5 SSGMVKLFIGNLPREATEQEIRSLFEQYG--KVLECDII--------KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINV   74 (90)
T ss_dssp             SSCCEEEEEESCCSSCCHHHHHHHHHTSS--CEEEEEEE--------TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCC--CEEEEEEE--------CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEE
Confidence            44568999999999999999999999999  89999886        589999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      ++++++.
T Consensus        75 ~~a~~~~   81 (90)
T 2dnq_A           75 EASKNKS   81 (90)
T ss_dssp             ECSSCCC
T ss_pred             EECCCCC
Confidence            9998643

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

Probab=99.80  E-value=2.8e-19  Score=118.67  Aligned_cols=81  Identities=22%  Similarity=0.290  Sum_probs=73.1

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|   +++.+ .+++++|||||+|.+.++|++||+.|||..|.|+.|+
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g--~v---~~~~~-~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   84 (101)
T 2fc9_A           11 WSGESKTLVLSNLSYSATEETLQEVFEKAT--FI---KVPQN-QNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIR   84 (101)
T ss_dssp             CSCCCSEEEEESCCTTCCHHHHHHHCSSCS--EE---ECCBC-SSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCC--EE---EEEEC-CCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEE
Confidence            344568999999999999999999999999  55   66666 4889999999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |++++++
T Consensus        85 v~~a~~~   91 (101)
T 2fc9_A           85 LELQGPR   91 (101)
T ss_dssp             EEECSSC
T ss_pred             EEEcCCC
Confidence            9999764

>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=99.80  E-value=2e-19  Score=122.99  Aligned_cols=81  Identities=12%  Similarity=0.190  Sum_probs=72.7

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCC--ceeCCcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPT--LELHGRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g--~~l~g~~l~  145 (172)
                      .+..+|||+|||+.+++++|+++|++||  .|..+.|+.+      +|||||+|.+.++|++|++.|++  ..|.|+.|+
T Consensus        29 ~ps~~LfVgNLp~~vte~dL~~lF~~fG--~V~~v~i~~~------kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~  100 (119)
T 2ad9_A           29 VPSRVIHIRKLPIDVTEGEVISLGLPFG--KVTNLLMLKG------KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIY  100 (119)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTTS--CCCEEEEEGG------GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEeCC------CCEEEEEECCHHHHHHHHHHhccCCceECCeEEE
Confidence            4567999999999999999999999999  8999999875      69999999999999999998884  689999999


Q ss_pred             EeccCCCCcch
Q psy8001         146 VAYPTRNVLYQ  156 (172)
Q Consensus       146 v~~a~~~~~~~  156 (172)
                      |.+++++....
T Consensus       101 V~~a~~k~~~~  111 (119)
T 2ad9_A          101 IQFSNHKELKT  111 (119)
T ss_dssp             EEECSSSSCCC
T ss_pred             EEEccCCCCCc
Confidence            99998765444

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

Probab=99.80  E-value=1.6e-19  Score=119.84  Aligned_cols=76  Identities=21%  Similarity=0.241  Sum_probs=71.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      ++|||+|||+.+++++|+++|++||  .|..+.++.+     ++|||||+|.+.++|++|++.|||..+.|+.|+|++++
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   73 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYG--PLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELST   73 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHC--CCSEEEEESS-----SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEeeC-----CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEcc
Confidence            4799999999999999999999999  8999999876     68999999999999999999999999999999999998


Q ss_pred             CCC
Q psy8001         151 RNV  153 (172)
Q Consensus       151 ~~~  153 (172)
                      +..
T Consensus        74 ~~~   76 (101)
T 2hvz_A           74 GMP   76 (101)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            754

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

Probab=99.80  E-value=4.1e-19  Score=117.16  Aligned_cols=78  Identities=18%  Similarity=0.233  Sum_probs=70.0

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|++||  .|. +.++.+    .++|||||+|.+.++|++|++.|||..|+|+.|+|+
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G--~v~-~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   89 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALRELG--SVP-LRLTWQ----GPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVA   89 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHTT--CCC-SEEEEE----TTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEE
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhcC--CEE-EEEEcC----CCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            4457999999999999999999999999  665 566654    578999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +++++
T Consensus        90 ~a~~~   94 (97)
T 2e5j_A           90 LARQQ   94 (97)
T ss_dssp             ECCCC
T ss_pred             EcCCC
Confidence            99864

>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=99.80  E-value=4.9e-19  Score=118.05  Aligned_cols=79  Identities=19%  Similarity=0.252  Sum_probs=71.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|++||  .|..+.++        +|||||+|.+.++|++||+.|||..|.|+.|+|+
T Consensus         9 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G--~i~~v~~~--------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   78 (103)
T 2dgu_A            9 AKVKVLFVRNLANTVTEEILEKAFSQFG--KLERVKKL--------KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIV   78 (103)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHHS--CEEEEEEC--------SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEE--------CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEE
Confidence            4557999999999999999999999999  89999875        4699999999999999999999999999999999


Q ss_pred             ccCCCCcch
Q psy8001         148 YPTRNVLYQ  156 (172)
Q Consensus       148 ~a~~~~~~~  156 (172)
                      ++++.....
T Consensus        79 ~a~~~~~~~   87 (103)
T 2dgu_A           79 FAKPPDQKR   87 (103)
T ss_dssp             ECCCCCCCC
T ss_pred             EcCCCcccc
Confidence            998765433

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

Probab=99.80  E-value=6.9e-19  Score=113.09  Aligned_cols=78  Identities=18%  Similarity=0.327  Sum_probs=71.2

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHC-CCceeCCcc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL-PTLELHGRK  143 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l-~g~~l~g~~  143 (172)
                      ......++|||+|||..+++++|+++|++||  .+..+.+++      .+|||||+|.+.++|++|++.| +|..+.|+.
T Consensus         7 ~~~~~~~~l~V~~l~~~~t~~~l~~~f~~~G--~i~~~~~~~------~kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~   78 (85)
T 2ytc_A            7 GEDKTITTLYVGGLGDTITETDLRNHFYQFG--EIRTITVVQ------RQQCAFIQFATRQAAEVAAEKSFNKLIVNGRR   78 (85)
T ss_dssp             CSCSSCCCEEEECCTTTSCHHHHHHHHHTTS--CEEEEEEEG------GGTEEEEEESSHHHHHHHHHTTTTTCEETTEE
T ss_pred             CCCCCccEEEEcCCCCCCCHHHHHHHHHhCC--CEeEEEEEC------CCCEEEEEECCHHHHHHHHHHhcCCeeECCCE
Confidence            3345567999999999999999999999999  899999876      3689999999999999999998 999999999


Q ss_pred             cEEeccC
Q psy8001         144 PMVAYPT  150 (172)
Q Consensus       144 l~v~~a~  150 (172)
                      |+|++++
T Consensus        79 l~v~~ak   85 (85)
T 2ytc_A           79 LNVKWGR   85 (85)
T ss_dssp             CCEEECC
T ss_pred             EEEEecC
Confidence            9999985

>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=99.80  E-value=6.9e-20  Score=115.13  Aligned_cols=75  Identities=20%  Similarity=0.348  Sum_probs=71.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      +|||+|||+.+++++|+++|++||  .+..+.++.++.+|.++|||||+|.+.++|++|++ +++..++|+.|.|++|
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~-~~~~~~~g~~l~v~~a   75 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFG--EVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHS--CCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHT-TSSCCBTTBCCCEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHH-hCCCeECCEEEEEEEC
Confidence            589999999999999999999999  89999999999899999999999999999999998 5999999999999875

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.80  E-value=1.2e-19  Score=119.58  Aligned_cols=83  Identities=11%  Similarity=0.234  Sum_probs=74.6

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHH----HHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMS----DAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~----~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      ...+.++|||+|||+.+++++|+    ++|++||  .+..+.++.   +|.++|||||+|.+.++|+.|++.|||..++|
T Consensus         4 ~~~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G--~i~~v~i~~---~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   78 (97)
T 1nu4_A            4 ETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFG--QILDILVSR---SLKMRGQAFVIFKEVSSATNALRSMQGFPFYD   78 (97)
T ss_dssp             --CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGS--CEEEEECCH---HHHHTTCEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCC--CEEEEEEEc---CCCcCcEEEEEeCCHHHHHHHHHHhCCCEECC
Confidence            34466799999999999999999    9999999  899998763   57789999999999999999999999999999


Q ss_pred             cccEEeccCCCC
Q psy8001         142 RKPMVAYPTRNV  153 (172)
Q Consensus       142 ~~l~v~~a~~~~  153 (172)
                      +.|+|.++++..
T Consensus        79 ~~l~v~~a~~~~   90 (97)
T 1nu4_A           79 KPMRIQYAKTDS   90 (97)
T ss_dssp             EECEEEECSSCC
T ss_pred             cEEEEEEccCCC
Confidence            999999998754

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

Probab=99.80  E-value=8.9e-20  Score=116.52  Aligned_cols=73  Identities=12%  Similarity=0.154  Sum_probs=67.6

Q ss_pred             ceEEEcCCCCCC------CHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc-c
Q psy8001          71 CNLYVGNLTWWT------TEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR-K  143 (172)
Q Consensus        71 ~~v~V~nL~~~~------~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~-~  143 (172)
                      ++|||+|||+.+      ++++|+++|++||  .|..+.++  +.+|+++|||||+|.+.++|++|++.|||..|+|+ +
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G--~i~~v~i~--~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~   77 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFG--KITNDFYP--EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHT   77 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTC--CEEEEECC--CBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSC
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcC--CeEEEEec--CCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCcee
Confidence            589999999999      7799999999999  89999887  34889999999999999999999999999999999 8


Q ss_pred             cEEe
Q psy8001         144 PMVA  147 (172)
Q Consensus       144 l~v~  147 (172)
                      |+|+
T Consensus        78 l~V~   81 (81)
T 2krb_A           78 FRVN   81 (81)
T ss_dssp             CCCC
T ss_pred             EEeC
Confidence            8873

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

Probab=99.80  E-value=3.3e-19  Score=118.19  Aligned_cols=79  Identities=16%  Similarity=0.170  Sum_probs=71.5

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCce--eCCccc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLE--LHGRKP  144 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~--l~g~~l  144 (172)
                      ..+...|||+|||+.+++++|+++|++||  .|..+.+++      .+|||||+|.+.++|.+|++.|++..  |.|+.|
T Consensus        18 ~~ps~~l~V~NLp~~~te~~L~~lF~~fG--~V~~v~i~~------~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i   89 (100)
T 3r27_A           18 TPASPVVHIRGLIDGVVEADLVEALQEFG--PISYVVVMP------KKRQALVEFEDVLGACNAVNYAADNQIYIAGHPA   89 (100)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEET------TTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHhccC--CEEEEEEEc------CCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEE
Confidence            34567999999999999999999999999  899999874      46899999999999999999999875  889999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      .|++++.+.
T Consensus        90 ~V~~S~~k~   98 (100)
T 3r27_A           90 FVNYSTSQK   98 (100)
T ss_dssp             EEEECSCSC
T ss_pred             EEEeccccc
Confidence            999998754

>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=99.80  E-value=5.1e-19  Score=117.82  Aligned_cols=80  Identities=16%  Similarity=0.183  Sum_probs=71.1

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHC--CCceeCCcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL--PTLELHGRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l--~g~~l~g~~l~  145 (172)
                      .+.++|||+|||+.+++++|+++|++||  .|..+.++.+      +|||||+|.+.++|+.|++.|  ++..|.|+.|.
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG--~v~~v~i~~~------kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~   84 (101)
T 2cq1_A           13 APSRVLHIRKLPGEVTETEVIALGLPFG--KVTNILMLKG------KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIY   84 (101)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTTS--CEEEEEEETT------TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEECC------CCEEEEEECCHHHHHHHHHHhccCCceECCcEEE
Confidence            4567999999999999999999999999  8999988764      799999999999999999977  46789999999


Q ss_pred             EeccCCCCcc
Q psy8001         146 VAYPTRNVLY  155 (172)
Q Consensus       146 v~~a~~~~~~  155 (172)
                      |.+++.+...
T Consensus        85 V~~a~~~~~~   94 (101)
T 2cq1_A           85 IQYSNHKELK   94 (101)
T ss_dssp             EEECSCSSCC
T ss_pred             EEEcCcccCc
Confidence            9999875433

>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=99.80  E-value=5.8e-19  Score=118.82  Aligned_cols=79  Identities=18%  Similarity=0.389  Sum_probs=73.0

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||..+++++|+++|++||  .|..+.|+.+      +|||||+|.+.++|++|++.|||..|.|+.|+|
T Consensus        22 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G--~i~~v~i~~~------~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v   93 (109)
T 1x4g_A           22 SPKNCTVYCGGIASGLTDQLMRQTFSPFG--QIMEIRVFPE------KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKC   93 (109)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHHS--CEEEEEEETT------TTEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEeCC------CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEE
Confidence            34567999999999999999999999999  8999998875      689999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      .++++..
T Consensus        94 ~~a~~~~  100 (109)
T 1x4g_A           94 YWGKESP  100 (109)
T ss_dssp             ECCCCCC
T ss_pred             EecCCCC
Confidence            9998753

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

Probab=99.79  E-value=3.3e-19  Score=118.35  Aligned_cols=76  Identities=22%  Similarity=0.487  Sum_probs=70.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||..+++++|+++|++||  .|..++++      +++|||||+|.+.++|++|++.|||..++|+.|+|+
T Consensus        25 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G--~i~~~~~~------~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~   96 (101)
T 2la4_A           25 PRVTTAYIGNIPHFATEADLIPLFQNFG--FILDFKHY------PEKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTG   96 (101)
T ss_dssp             SSCCEEEEESCCTTCCHHHHHHHHHTTS--CCSEEEEE------TTTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCC
T ss_pred             CCCCEEEEcCCCcccCHHHHHHHHHhCC--CEEEEEEe------cCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEE
Confidence            3457999999999999999999999999  89999886      357999999999999999999999999999999999


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      ++++
T Consensus        97 ~a~~  100 (101)
T 2la4_A           97 WGKE  100 (101)
T ss_dssp             BCCC
T ss_pred             eccC
Confidence            9975

>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=99.79  E-value=6.1e-19  Score=118.08  Aligned_cols=78  Identities=19%  Similarity=0.187  Sum_probs=69.9

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc--eeCCcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL--ELHGRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~--~l~g~~l~  145 (172)
                      .+..+|||+|||+.+++++|+++|++||  .|..+.++.+      +|||||+|.+.++|++|++.|++.  .|.|+.|+
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG--~V~~v~i~~~------kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~   84 (104)
T 1wex_A           13 SVSPVVHVRGLCESVVEADLVEALEKFG--TICYVMMMPF------KRQALVEFENIDSAKECVTFAADVPVYIAGQQAF   84 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTS--CEEEEEEETT------TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCC--CEEEEEEECC------CCEEEEEECCHHHHHHHHHHhccCCceECCEEEE
Confidence            4557999999999999999999999999  8999988753      689999999999999999988765  59999999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |.+++.+.
T Consensus        85 V~~a~~~~   92 (104)
T 1wex_A           85 FNYSTSKR   92 (104)
T ss_dssp             EEECSSSS
T ss_pred             EEEccCcc
Confidence            99998654

>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=99.79  E-value=7.2e-19  Score=115.92  Aligned_cols=78  Identities=15%  Similarity=0.260  Sum_probs=71.3

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC--CcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH--GRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~--g~~l~  145 (172)
                      ...++|||+|||+.+++++|+++|++||  .|..+.++.+      +|||||+|.+.++|++|++.|||..|.  |+.|+
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~v~~v~~~~~------~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~   86 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRFG--SIRTIDHVKG------DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLR   86 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTS--CEEEEEECSS------SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeeEEEEeCC------CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEE
Confidence            3457999999999999999999999999  8999988643      689999999999999999999999999  99999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |++++++.
T Consensus        87 V~~a~~~~   94 (97)
T 1why_A           87 VDFAKSGP   94 (97)
T ss_dssp             EEECCCCC
T ss_pred             EEECCCCC
Confidence            99998653

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

Probab=99.79  E-value=5.9e-19  Score=128.82  Aligned_cols=86  Identities=17%  Similarity=0.253  Sum_probs=80.1

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..|.|+.++ ++.++|||||+|.+.++|++||+.|||..|+|+.|+
T Consensus        84 ~~~~~~~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           84 GVETGAKLLVSNLDFGVSDADIQELFAEFG--TLKKAAVDYDR-SGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMD  160 (177)
T ss_dssp             SCTTCEEEEEECCCSCCCHHHHHHHHHHTS--CCSEEEECCCT-TSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEECC-CCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEE
Confidence            345678999999999999999999999999  89999999998 999999999999999999999999999999999999


Q ss_pred             EeccCCCCc
Q psy8001         146 VAYPTRNVL  154 (172)
Q Consensus       146 v~~a~~~~~  154 (172)
                      |+++.....
T Consensus       161 V~~a~~~~~  169 (177)
T 2f3j_A          161 IQLVASQID  169 (177)
T ss_dssp             EEEESSGGG
T ss_pred             EEEecCCCC
Confidence            999986543

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

Probab=99.79  E-value=6.5e-19  Score=118.66  Aligned_cols=77  Identities=19%  Similarity=0.312  Sum_probs=71.0

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..+.++        +|||||+|.+.++|++|++.|||..++|+.|.
T Consensus        27 ~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G--~i~~v~i~--------kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~   96 (108)
T 2jvo_A           27 GELSNTRLFVRPFPLDVQESELNEIFGPFG--PMKEVKIL--------NGFAFVEFEEAESAAKAIEEVHGKSFANQPLE   96 (108)
T ss_dssp             -CCSCSEEEECSSCTTCCHHHHHHHHTTTS--CCCEEEEE--------TTEEEEECSSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcC--CEEEEEEE--------CCEEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence            345567999999999999999999999999  89999886        68999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.++++.
T Consensus        97 V~~a~~~  103 (108)
T 2jvo_A           97 VVYSKLP  103 (108)
T ss_dssp             EESCSCC
T ss_pred             EEEecCC
Confidence            9999864

>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=99.79  E-value=1.1e-18  Score=115.36  Aligned_cols=76  Identities=17%  Similarity=0.320  Sum_probs=70.2

Q ss_pred             CCCcceEEEcCCCC-CCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          67 SSSHCNLYVGNLTW-WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        67 ~~~~~~v~V~nL~~-~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ....++|||+|||+ .+++++|+++|++||  .|..+.+        .+|||||+|.+.++|++|++.|||..++|++|+
T Consensus        19 ~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G--~v~~v~i--------~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~   88 (97)
T 2xnq_A           19 SHMKSRLFIGNLPLKNVSKEDLFRIFSPYG--HIMQINI--------KNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLI   88 (97)
T ss_dssp             CCTTCEEEEESCCSSCCCHHHHHHHHGGGS--CEEEEEE--------CSSEEEEEESSHHHHHHHHHHHTTSEETTEECE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcC--CEEEEEE--------eCCEEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            34567999999998 999999999999999  8999988        278999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |++++..
T Consensus        89 V~~a~~~   95 (97)
T 2xnq_A           89 LEVSSSN   95 (97)
T ss_dssp             EEECCCC
T ss_pred             EEecCCC
Confidence            9999764

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

Probab=99.79  E-value=3.8e-19  Score=120.07  Aligned_cols=79  Identities=15%  Similarity=0.162  Sum_probs=72.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|+.|+   |..|+|+.++ +|+++|||||+|.+.++|++|| .||+..|+||.|.|.
T Consensus        14 ~~~~~v~V~nLp~~~te~dl~~~F~~~~---v~~v~i~~d~-~g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~   88 (109)
T 2dnn_A           14 PDDLYVSVHGMPFSAMENDVRDFFHGLR---VDAVHLLKDH-VGRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVS   88 (109)
T ss_dssp             HHHHEEEEECCCSSCCHHHHHHHTTTSC---CCEEEECCCT-TCCCCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhccCC---eeEEEEEECC-CCCCCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEE
Confidence            3467999999999999999999999996   6799999998 4999999999999999999999 599999999999999


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      .+..
T Consensus        89 ~a~~   92 (109)
T 2dnn_A           89 PATE   92 (109)
T ss_dssp             ECCH
T ss_pred             ECCc
Confidence            8864

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

Probab=99.79  E-value=7.7e-19  Score=131.38  Aligned_cols=83  Identities=17%  Similarity=0.307  Sum_probs=78.2

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      +.++|||+|||+.+++++|+++|++||  .|..|+|++|+.+++++|||||+|.+.++|++||+.||+..+.|+.|++.+
T Consensus        14 p~~tlfVgnLp~~~te~~L~~~F~~~G--~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~   91 (213)
T 4f02_A           14 PMASLYVGDLHPDVTEAMLYEKFSPAG--PILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMW   91 (213)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhhC--CEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCccccccc
Confidence            456899999999999999999999999  999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCC
Q psy8001         149 PTRNV  153 (172)
Q Consensus       149 a~~~~  153 (172)
                      +....
T Consensus        92 ~~~~~   96 (213)
T 4f02_A           92 SQRDP   96 (213)
T ss_dssp             CCCCT
T ss_pred             ccccc
Confidence            87643

>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=99.79  E-value=9.3e-19  Score=118.79  Aligned_cols=79  Identities=18%  Similarity=0.247  Sum_probs=73.1

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|+.||  .|..+.++.+   +.++|||||+|.+.++|++|++.|||..++|+.|.|.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~v~~v~i~~~---~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   80 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYG--PIRQIRVGNT---PETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVL   80 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTS--CEEEEEEECS---TTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEeeC---CCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence            3457999999999999999999999999  8999999865   4568999999999999999999999999999999999


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      ++++
T Consensus        81 ~a~~   84 (115)
T 3lqv_A           81 YYNA   84 (115)
T ss_dssp             ECCH
T ss_pred             EecC
Confidence            9975

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

Probab=99.79  E-value=5e-19  Score=119.79  Aligned_cols=80  Identities=19%  Similarity=0.169  Sum_probs=69.7

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|++||. .|..+.+..    .+++|||||+|.+.++|++||+.|||..|+|+.|+|+
T Consensus        26 ~~~~~l~VgnLp~~~te~dL~~~F~~~G~-~v~~v~i~~----~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~  100 (111)
T 2jvr_A           26 AKRYRITMKNLPEGCSWQDLKDLARENSL-ETTFSSVNT----RDFDGTGALEFPSEEILVEALERLNNIEFRGSVITVE  100 (111)
T ss_dssp             CCCEEEEEECSSCCCCHHHHHHHHHHHTC-CCSEEECSS----CSSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhCC-eeEEEEEEc----CCCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence            35689999999999999999999999992 266676643    2478999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +++..
T Consensus       101 ~a~~~  105 (111)
T 2jvr_A          101 RDDNP  105 (111)
T ss_dssp             ESCC-
T ss_pred             ECCCC
Confidence            99753

>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=99.79  E-value=7.5e-19  Score=116.24  Aligned_cols=79  Identities=23%  Similarity=0.344  Sum_probs=72.2

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .|..+.++.+      +|||||+|.+.++|++|++.|||..|.|++|+|
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~v~~~~~------kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v   83 (99)
T 2cpj_A           12 FTQRSRLFVGNLPPDITEEEMRKLFEKYG--KAGEVFIHKD------KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRV   83 (99)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHHTSTTC--CCSEEEEETT------TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhcC--CeEEEEEecC------CCEEEEEECCHHHHHHHHHHhCCCEeCCceEEE
Confidence            34567999999999999999999999999  8999988753      689999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      .++++..
T Consensus        84 ~~a~~~~   90 (99)
T 2cpj_A           84 RFACHSA   90 (99)
T ss_dssp             EESSCCS
T ss_pred             EEcCCCC
Confidence            9998753

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

Probab=99.78  E-value=1.2e-19  Score=125.06  Aligned_cols=82  Identities=13%  Similarity=0.093  Sum_probs=74.2

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCe----EEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDF----IDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK  143 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~----~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~  143 (172)
                      ...++|||+|||+.+++++|+++|++||  .|    ..|+|+.++ +|+++|||||+|.+.++|++||+. |+..|+||.
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g--~v~g~v~~v~i~~d~-~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~   96 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHC--PITGGKEGILFVTYP-DGRPTGDAFVLFACEEYAQNALRK-HKDLLGKRY   96 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTS--CCTTGGGGEEEEECT-TSCEEEEEEECCSSHHHHHHHHTT-TTEESSSCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhC--CccCCcceEEEEECC-CCCEeeEEEEEECCHHHHHHHHHh-CCCeeCCeE
Confidence            4567999999999999999999999999  54    689999986 899999999999999999999995 999999999


Q ss_pred             cEEeccCCCC
Q psy8001         144 PMVAYPTRNV  153 (172)
Q Consensus       144 l~v~~a~~~~  153 (172)
                      |.|..+.+..
T Consensus        97 i~V~~a~~~e  106 (123)
T 2dha_A           97 IELFRSTAAE  106 (123)
T ss_dssp             ECCEEECHHH
T ss_pred             EEEEECCHHH
Confidence            9999886543

>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=99.78  E-value=5.2e-19  Score=117.94  Aligned_cols=76  Identities=7%  Similarity=0.099  Sum_probs=69.4

Q ss_pred             CCcceEEEcCCCC-CCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc--eeCCccc
Q psy8001          68 SSHCNLYVGNLTW-WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL--ELHGRKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~-~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~--~l~g~~l  144 (172)
                      .+..+|||+|||+ .+++++|+++|++||  .|..+.|+++      +|||||+|.+.++|+.||+.||+.  .|.|+.|
T Consensus        13 ~p~~~l~V~nLp~~~~te~dL~~lF~~fG--~V~~v~i~~~------kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l   84 (102)
T 1x4d_A           13 ETRRVVHIMDFQRGKNLRYQLLQLVEPFG--VISNHLILNK------INEAFIEMATTEDAQAAVDYYTTTPALVFGKPV   84 (102)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGS--CEEEEEECSS------SSCEEEEESSHHHHHHHHHHHHHSCCEETTEEC
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHhcC--CEEEEEEEcC------CCEEEEEECCHHHHHHHHHHHcCCCceECCcEE
Confidence            3567999999999 999999999999999  9999999765      489999999999999999999864  5999999


Q ss_pred             EEeccCC
Q psy8001         145 MVAYPTR  151 (172)
Q Consensus       145 ~v~~a~~  151 (172)
                      +|.+|+.
T Consensus        85 ~V~~a~~   91 (102)
T 1x4d_A           85 RVHLSQK   91 (102)
T ss_dssp             EEEEECC
T ss_pred             EEEECCC
Confidence            9999975

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

Probab=99.66  E-value=9.7e-21  Score=128.97  Aligned_cols=84  Identities=21%  Similarity=0.340  Sum_probs=78.4

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEE--------EEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFID--------VKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL  139 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~--------~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l  139 (172)
                      .+.++|||+|||+.+++++|+++|++||  .+..        +.|+.++.+++++|||||+|.+.++|++||+.|||..|
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~   82 (116)
T 2lcw_A            5 SDNNTIFVQGLGENVTIESVADYFKQIG--IIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEF   82 (116)
Confidence            4567999999999999999999999999  8888        89999988999999999999999999999999999999


Q ss_pred             CCcccEEeccCCCC
Q psy8001         140 HGRKPMVAYPTRNV  153 (172)
Q Consensus       140 ~g~~l~v~~a~~~~  153 (172)
                      .|+.|+|++++++.
T Consensus        83 ~g~~l~V~~a~~~~   96 (116)
T 2lcw_A           83 SGNPIKVSFATRRA   96 (116)
Confidence            99999999998643

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

Probab=99.78  E-value=4.4e-19  Score=116.60  Aligned_cols=79  Identities=22%  Similarity=0.314  Sum_probs=70.9

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .+..+     ..++.++|||||+|.+.++|++|++.|||..|+|+.|+|
T Consensus        13 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~g--~v~~~-----~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v   85 (96)
T 1fjc_A           13 VRAARTLLAKNLSFNITEDELKEVFEDAL--EIRLV-----SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSL   85 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEE--EECCE-----EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhCC--cEEEe-----CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            34568999999999999999999999999  66544     237889999999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .+++++
T Consensus        86 ~~a~~~   91 (96)
T 1fjc_A           86 YYTGEK   91 (96)
T ss_dssp             EECSSS
T ss_pred             EEcCCC
Confidence            999764

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

Probab=99.78  E-value=2.2e-18  Score=122.94  Aligned_cols=84  Identities=19%  Similarity=0.425  Sum_probs=79.0

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||..+++++|+++|++||  .+..+.++.++.+|.++|||||+|.+.++|.+|++.|||..++|+.|+
T Consensus        83 ~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G--~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~  160 (166)
T 3md3_A           83 SSDDTFNLFVGDLNVNVDDETLRNAFKDFP--SYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLR  160 (166)
T ss_dssp             CCTTCEEEEEESCCTTCCHHHHHHHHTTST--TEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCceEEECCCCCCCCHHHHHHHHhccC--CeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccCCcEEE
Confidence            344567999999999999999999999999  999999999988999999999999999999999999999999999999


Q ss_pred             EeccCC
Q psy8001         146 VAYPTR  151 (172)
Q Consensus       146 v~~a~~  151 (172)
                      |.+|++
T Consensus       161 v~~a~~  166 (166)
T 3md3_A          161 INWAAK  166 (166)
T ss_dssp             EEESCC
T ss_pred             EEecCC
Confidence            999863

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

Probab=99.78  E-value=1.5e-18  Score=114.05  Aligned_cols=80  Identities=14%  Similarity=0.155  Sum_probs=71.9

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEE-EEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDV-KFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~-~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...++|||+|||+.+++++|+++|++||  .|..+ .++.++.++    .|||+|.+.++|+.|++.|||..|+|+.|+|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~v~~~~~i~~~~~~~----~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V   86 (96)
T 2e44_A           13 QRIRKLQIRNIPPHLQWEVLDSLLVQYG--VVESCEQVNTDSETA----VVNVTYSSKDQARQALDKLNGFQLENFTLKV   86 (96)
T ss_dssp             CSCCCEEEEEECSSSCHHHHHHHHHHHS--CEEEEEEECCSSSSE----EEEEEESSHHHHHHHHHHHTTCBCSSCBCEE
T ss_pred             CCCCEEEEEcCCCCCCHHHHHHHHHhcC--CeEEEEEeecCCCCC----EEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            3457999999999999999999999999  89999 488776443    3999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      +++++..
T Consensus        87 ~~a~~~~   93 (96)
T 2e44_A           87 AYIPDEM   93 (96)
T ss_dssp             EECCCCC
T ss_pred             EEcCccc
Confidence            9998753

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

Probab=99.78  E-value=8.5e-19  Score=115.45  Aligned_cols=77  Identities=16%  Similarity=0.287  Sum_probs=70.0

Q ss_pred             CCCcceEEEcCCCC-CCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          67 SSSHCNLYVGNLTW-WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        67 ~~~~~~v~V~nL~~-~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ..+.++|||+|||+ .+++++|+++|++||  .|..+.+.        +|||||+|.+.++|+.|++.|||..+.|+.|+
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G--~v~~v~i~--------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   76 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIFSPYG--HIMQINIK--------NAFGFIQFDNPQSVRDAIECESQEMNFGKKLI   76 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHHTTTC--CCCEEEEE--------TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBC
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcC--CEEEEEEe--------CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEE
Confidence            34678999999999 999999999999999  89998873        68999999999999999999999999999999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |+++++..
T Consensus        77 V~~a~~~~   84 (96)
T 2kvi_A           77 LEVSSSNA   84 (96)
T ss_dssp             EEEEECCC
T ss_pred             EEEcCcCC
Confidence            99997654

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

Probab=99.78  E-value=2.8e-19  Score=118.89  Aligned_cols=81  Identities=20%  Similarity=0.378  Sum_probs=75.6

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .|..+.++.++ +|.++|||||+|.+.++|++|++  ++..|+|+.|.|
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~-~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v   80 (102)
T 2xs2_A            6 KIMPNTVFVGGIDVRMDETEIRSFFARYG--SVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE--SQINFHGKKLKL   80 (102)
T ss_dssp             EEEEEEEEEECCCTTCCHHHHHHHHGGGS--CEEEEEEEECT-TSCEEEEEEEEESSCCCHHHHTT--CCCEETTEECEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCC--CeEEEEEEECC-CCCccceEEEEECCHHHHHHHHh--CCCeECCEEEEE
Confidence            34457999999999999999999999999  99999999999 99999999999999999999998  999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .++.+.
T Consensus        81 ~~a~~~   86 (102)
T 2xs2_A           81 GPAIRK   86 (102)
T ss_dssp             EEEEEC
T ss_pred             EECCcC
Confidence            998753

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

Probab=99.78  E-value=1.8e-18  Score=112.87  Aligned_cols=77  Identities=19%  Similarity=0.322  Sum_probs=70.6

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..+.++        ++||||+|.+.++|++|++.|||..|.|+.|+
T Consensus         6 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~v~~v~~~--------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   75 (92)
T 2dgt_A            6 SGKASTKLHVGNISPTCTNQELRAKFEEYG--PVIECDIV--------KDYAFVHMERAEDAVEAIRGLDNTEFQGKRMH   75 (92)
T ss_dssp             CCCSSEEEEEESCCSSCCHHHHHHHHHTTS--CCCEEEEC--------SSEEEEEESCHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEE--------CCEEEEEECCHHHHHHHHHHhCCCeeCCcEEE
Confidence            345568999999999999999999999999  89999885        34999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |++++++
T Consensus        76 V~~a~~~   82 (92)
T 2dgt_A           76 VQLSTSR   82 (92)
T ss_dssp             EEESSCC
T ss_pred             EEEccCC
Confidence            9999764

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

Probab=99.77  E-value=2.3e-18  Score=111.92  Aligned_cols=76  Identities=20%  Similarity=0.356  Sum_probs=70.0

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .|..+.++        ++||||+|.+.++|++|++.|||..|.|+.|+|
T Consensus         6 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G--~v~~~~~~--------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v   75 (90)
T 2dnp_A            6 SGNTWKIFVGNVSAACTSQELRSLFERRG--RVIECDVV--------KDYAFVHMEKEADAKAAIAQLNGKEVKGKRINV   75 (90)
T ss_dssp             SCCSCCEEEESCCTTCCHHHHHHHHHHHS--CEEEEEEC--------SSCEEEEESCHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHcCC--CEEEEEEE--------CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            34567999999999999999999999999  89999885        349999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      +++++.
T Consensus        76 ~~a~~~   81 (90)
T 2dnp_A           76 ELSTKG   81 (90)
T ss_dssp             EESCCC
T ss_pred             EECCCC
Confidence            999764

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

Probab=99.77  E-value=4.3e-18  Score=112.54  Aligned_cols=76  Identities=26%  Similarity=0.233  Sum_probs=69.3

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhc--CCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSI--GVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~--g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ...++|||+|||+.+++++|+++|++|  |  .|..+++        .+|||||+|.+.++|++|++.|||..|.|+.|+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g--~v~~~~~--------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   82 (99)
T 2cpd_A           13 SSVKILYVRNLMLSTSEEMIEKEFNNIKPG--AVERVKK--------IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIE   82 (99)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTSTT--CEEEEEE--------CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEE
T ss_pred             CCcCEEEEeCCCCCCCHHHHHHHHHhcCCc--ceEEEEE--------eCCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEE
Confidence            456799999999999999999999999  8  7888876        367999999999999999999999999999999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |.++++..
T Consensus        83 v~~a~~~~   90 (99)
T 2cpd_A           83 VTLAKPVD   90 (99)
T ss_dssp             EECCCCCC
T ss_pred             EEECCCCC
Confidence            99998643

>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=99.77  E-value=3.3e-18  Score=122.10  Aligned_cols=82  Identities=23%  Similarity=0.304  Sum_probs=78.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .++|||+|||+.+++++|+++|+.||  .+..+.++.++.+|.++|||||+|.+.++|++|++.|||..+.|+.|.|.++
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G--~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~   79 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIG--EIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYA   79 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcC--CeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEec
Confidence            46899999999999999999999999  9999999999989999999999999999999999999999999999999999


Q ss_pred             CCCC
Q psy8001         150 TRNV  153 (172)
Q Consensus       150 ~~~~  153 (172)
                      .+..
T Consensus        80 ~~~~   83 (167)
T 1fxl_A           80 RPSS   83 (167)
T ss_dssp             CCCC
T ss_pred             CCCc
Confidence            8643

>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=99.77  E-value=2.3e-19  Score=126.37  Aligned_cols=81  Identities=21%  Similarity=0.374  Sum_probs=71.5

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEE--------EEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCce
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDV--------KFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLE  138 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~--------~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~  138 (172)
                      ....++|||+|||+.+++++|+.+|+.||  .|..+        .+.   .+|.++|||||+|.+.++|.+||+.|||..
T Consensus        42 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G--~i~~~~~~~~~di~~~---~~g~~~g~afV~f~~~~~A~~Ai~~lng~~  116 (143)
T 3egn_A           42 GEPNCRIYVKNLAKHVQEKDLKYIFGRYV--DFSSETQRIMFDIRLM---KEGRMKGQAFIGLPNEKAAAKALKEANGYV  116 (143)
T ss_dssp             CSCCSEEEEEEECTTCCHHHHHHHHGGGC--CTTCHHHHHHCEEEEE---EETTTEEEEEEECSSHHHHHHHHHHHTTBE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhC--CcccccccceeeEEec---cCCCcccEEEEEeCCHHHHHHHHHHhCCCE
Confidence            44567999999999999999999999999  66553        322   278899999999999999999999999999


Q ss_pred             eCCcccEEeccCCC
Q psy8001         139 LHGRKPMVAYPTRN  152 (172)
Q Consensus       139 l~g~~l~v~~a~~~  152 (172)
                      |.|+.|.|.++++.
T Consensus       117 ~~g~~l~V~~a~~~  130 (143)
T 3egn_A          117 LFGKPMVVQFARSA  130 (143)
T ss_dssp             ETTEECEEEECCCS
T ss_pred             eCCcEEEEEECCCC
Confidence            99999999999764

>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=99.77  E-value=1.9e-18  Score=142.15  Aligned_cols=86  Identities=15%  Similarity=0.322  Sum_probs=80.5

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+||++.+++++|+.+|++||  .|..|.|+.++.+|.++|||||+|.+.++|++||+.|||..|+|+.|.|
T Consensus        99 ~~~~~~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           99 GDAFKTLFVARVNYDTTESKLRREFEVYG--PIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLV  176 (437)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcC--CeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEE
Confidence            34567999999999999999999999999  8999999999989999999999999999999999999999999999999


Q ss_pred             eccCCCCc
Q psy8001         147 AYPTRNVL  154 (172)
Q Consensus       147 ~~a~~~~~  154 (172)
                      .++.+...
T Consensus       177 ~~a~~~~~  184 (437)
T 3pgw_S          177 DVERGRTV  184 (437)
T ss_pred             EEeCCCCC
Confidence            99986543

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A

Probab=99.77  E-value=1.6e-18  Score=122.98  Aligned_cols=80  Identities=21%  Similarity=0.303  Sum_probs=73.8

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|++||  .|..++++.+     ++|||||+|.+.++|+.|++.|||..|+|+.|+
T Consensus        69 ~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G--~i~~v~i~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~  141 (150)
T 2i2y_A           69 SCPLDCKVYVGNLGNNGNKTELERAFGYYG--PLRSVWVARN-----PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVR  141 (150)
T ss_dssp             SSTTSCEEEEESCCSCCSCHHHHHHHHHHS--CEEEEEECSS-----SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhhC--CEEEEEEeeC-----CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence            344568999999999999999999999999  9999999876     589999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |++++++
T Consensus       142 v~~a~~~  148 (150)
T 2i2y_A          142 VELSNGE  148 (150)
T ss_dssp             EEECCCC
T ss_pred             EEEcCCC
Confidence            9999764

>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=99.77  E-value=2.1e-18  Score=123.48  Aligned_cols=82  Identities=22%  Similarity=0.323  Sum_probs=78.1

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      +.++|||+|||+.+++++|+++|+.||  .+..+.++.++.+|.++|||||+|.+.++|++|++.|||..+.|+.|.|.+
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~   79 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIG--PINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSY   79 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTS--CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcC--CeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEe
Confidence            457999999999999999999999999  999999999988999999999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      +.+.
T Consensus        80 ~~~~   83 (168)
T 1b7f_A           80 ARPG   83 (168)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            9864

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

Probab=99.76  E-value=1.4e-17  Score=122.29  Aligned_cols=85  Identities=16%  Similarity=0.329  Sum_probs=80.0

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .+..+.++.++.+|.++|||||+|.+.++|++|++.|||..|+|+.|.|
T Consensus       111 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~G--~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v  188 (198)
T 2yh0_A          111 PDSAHKLFIGGLPNYLNDDQVKELLTSFG--PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV  188 (198)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHTBS--CEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcC--CccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            35668999999999999999999999999  9999999999889999999999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      .++++..
T Consensus       189 ~~a~~~~  195 (198)
T 2yh0_A          189 QRASVGA  195 (198)
T ss_dssp             EESCCCC
T ss_pred             EECCCCC
Confidence            9998653

>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=99.76  E-value=1.7e-18  Score=117.16  Aligned_cols=79  Identities=11%  Similarity=0.124  Sum_probs=69.8

Q ss_pred             CCCcceEEEcCCCCC-CCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCC--ceeCCcc
Q psy8001          67 SSSHCNLYVGNLTWW-TTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPT--LELHGRK  143 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~-~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g--~~l~g~~  143 (172)
                      ..+.++|||+|||+. +++++|+++|++||  .|..+.|++      .+|||||+|.+.++|+.|++.||+  ..|.|+.
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG--~V~~v~i~~------~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~   93 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYG--KIKNYILMR------MKSQAFIEMETREDAMAMVDHCLKKALWFQGRC   93 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTS--CCSEEEEET------TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSC
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcC--CEEEEEEec------CCCEEEEEECCHHHHHHHHHHhccCCceECCEE
Confidence            345679999999998 99999999999999  899999864      479999999999999999998864  5699999


Q ss_pred             cEEeccCCCC
Q psy8001         144 PMVAYPTRNV  153 (172)
Q Consensus       144 l~v~~a~~~~  153 (172)
                      |+|.+++...
T Consensus        94 l~V~~a~~~~  103 (112)
T 1x4f_A           94 VKVDLSEKYK  103 (112)
T ss_dssp             CEEEEECSCS
T ss_pred             EEEEECcccc
Confidence            9999997643

>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=99.76  E-value=1e-17  Score=112.88  Aligned_cols=74  Identities=16%  Similarity=0.230  Sum_probs=69.0

Q ss_pred             CCcceEEEcCCCCC-CCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          68 SSHCNLYVGNLTWW-TTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~-~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...++|||+|||+. +++++|+++|++||  .|..+.+        ++|||||+|.+.++|++|++.|||..|+|+.|+|
T Consensus        25 ~~~~~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           25 SINSRVFIGNLNTALVKKSDVETIFSKYG--RVAGCSV--------HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDI   94 (110)
T ss_dssp             TCSSEEEECSCCCSSCCHHHHHHHHGGGS--CCSEEEE--------ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCE
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHHhCC--CeEEEEE--------eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence            34579999999999 99999999999999  8989887        5799999999999999999999999999999999


Q ss_pred             eccCC
Q psy8001         147 AYPTR  151 (172)
Q Consensus       147 ~~a~~  151 (172)
                      ++++.
T Consensus        95 ~~a~~   99 (110)
T 1wf1_A           95 NMAGE   99 (110)
T ss_dssp             EESCC
T ss_pred             EECCC
Confidence            99975

>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=99.76  E-value=1.7e-18  Score=113.16  Aligned_cols=76  Identities=24%  Similarity=0.323  Sum_probs=67.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCC-eEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCC-ceeCCcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPD-FIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPT-LELHGRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~-~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g-~~l~g~~l~  145 (172)
                      ...++|||+|||+.+++++|+++|++||  . +..+.+.       ++|||||+|.+.++|++|++.||| ..|+|+.|+
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~vv~~~~~~-------~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~   76 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLFGDRK--LPLAGQVLL-------KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIME   76 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHTT--CCCSSCEEE-------ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcC--CceEEEEEc-------CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEE
Confidence            4557999999999999999999999999  6 4544442       478999999999999999999999 999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |++++++
T Consensus        77 v~~a~~~   83 (93)
T 2cqh_A           77 VDYSVSK   83 (93)
T ss_dssp             EEECCCC
T ss_pred             EEEccCc
Confidence            9999864

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

Probab=99.76  E-value=4.1e-18  Score=126.73  Aligned_cols=84  Identities=13%  Similarity=0.256  Sum_probs=79.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||..+++++|+++|++||  .|..++++.++.+|.++|||||+|.+.++|.+|++.|||..|+|+.|+|.
T Consensus       123 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G--~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~V~  200 (216)
T 2qfj_A          123 RAFNRIYVASVHQDLSDDDIKSVFEAFG--KIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVG  200 (216)
T ss_dssp             TTSCEEEEECCCTTCCHHHHHHHHTTSS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCBCSSSBCEEE
T ss_pred             CCCcEEEEeCCCCcCCHHHHHHHHhccC--CeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHccCCEeCCcEEEEE
Confidence            3457999999999999999999999999  99999999999899999999999999999999999999999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      ++.++.
T Consensus       201 ~a~~~~  206 (216)
T 2qfj_A          201 KAVTPP  206 (216)
T ss_dssp             ECSSCS
T ss_pred             EecCCC
Confidence            998754

>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=99.76  E-value=5.8e-18  Score=121.44  Aligned_cols=81  Identities=11%  Similarity=0.077  Sum_probs=72.2

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC--ccc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG--RKP  144 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g--~~l  144 (172)
                      ......|||+||++.+++++|+++|++||  .|.+|.|..++    .+|||||+|.+.++|+.|++.|||..|.|  +.|
T Consensus        43 ps~vl~l~VgNL~~~vted~L~~~Fs~fG--~V~~V~i~~k~----~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L  116 (164)
T 1sjr_A           43 QSPVLRIIVENLFYPVTLDVLHQIFSKFG--TVLKIITFTKN----NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTL  116 (164)
T ss_dssp             CCCEEEEEECSCCSCCCHHHHHHHHHHHS--CEEEEEEEESS----SCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCE
T ss_pred             CCceEEEEEeCcCCCCCHHHHHHHHHhcC--CEEEEEEEeCC----CCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEE
Confidence            34456899999999999999999999999  99999986532    57899999999999999999999999965  999


Q ss_pred             EEeccCCCC
Q psy8001         145 MVAYPTRNV  153 (172)
Q Consensus       145 ~v~~a~~~~  153 (172)
                      +|+|++++.
T Consensus       117 ~V~~Ak~~~  125 (164)
T 1sjr_A          117 RIDFSKLTS  125 (164)
T ss_dssp             EEEECSSSS
T ss_pred             EEEEecCCc
Confidence            999999764

>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=99.76  E-value=1.2e-18  Score=120.33  Aligned_cols=79  Identities=11%  Similarity=0.133  Sum_probs=71.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeE--EEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFI--DVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~--~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ...++|||+|||+.+++++|+++|++|+   +.  .|+|+.|+. |+++|||||+|.+.++|++||+ +++..|+||.|.
T Consensus        40 ~~~~~lfVgnLp~~~te~dL~~~F~~~~---i~~~~v~i~~d~~-GrsrGfaFV~F~~~e~A~~Al~-~~~~~l~gR~I~  114 (126)
T 2hgm_A           40 ANDGFVRLRGLPFGCTKEEIVQFFSGLE---IVPNGITLPVDPE-GKITGEAFVQFASQELAEKALG-KHKERIGHRYIE  114 (126)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHTTTSC---EEEEEEECCCCSS-SSSCSEEEEEESSTTHHHHHHT-TTTCCBTTBCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcCC---ceeeEEEEEECCC-CCCceEEEEEECCHHHHHHHHH-HCCCEECCEEEE
Confidence            4557899999999999999999999998   44  899999985 9999999999999999999998 588999999999


Q ss_pred             EeccCC
Q psy8001         146 VAYPTR  151 (172)
Q Consensus       146 v~~a~~  151 (172)
                      |..+.+
T Consensus       115 V~~a~~  120 (126)
T 2hgm_A          115 VFKSSQ  120 (126)
T ss_dssp             CEEECH
T ss_pred             EEECCH
Confidence            998854

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

Probab=99.76  E-value=5.3e-18  Score=111.16  Aligned_cols=76  Identities=17%  Similarity=0.260  Sum_probs=68.5

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ...+|||+|||+.+++++|+++|++||  .|..|  +.++.+|+   ||||+|.+.++|++||+ |||..|+|+.|.|++
T Consensus         7 ~~~~l~V~nl~~~~t~~~l~~~F~~~G--~v~~v--~~~~~~g~---~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~   78 (94)
T 2e5g_A            7 GLRSVFVSGFPRGVDSAQLSEYFLAFG--PVASV--VMDKDKGV---FAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRP   78 (94)
T ss_dssp             TCCEEEEECCCTTCCHHHHHHHGGGTS--CEEEE--EECSSSCC---EEEEEESSHHHHHHHHT-CSCCEETTEECCCBC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcC--CeEEE--EEcCCCCc---EEEEEECCHHHHHHHHh-cCCeEECCEEEEEEE
Confidence            346899999999999999999999999  88876  66665665   99999999999999999 999999999999998


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      +.++
T Consensus        79 a~~~   82 (94)
T 2e5g_A           79 REQK   82 (94)
T ss_dssp             SCCS
T ss_pred             CCcC
Confidence            8654

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

Probab=99.76  E-value=1.6e-18  Score=118.90  Aligned_cols=81  Identities=11%  Similarity=0.128  Sum_probs=73.0

Q ss_pred             ceEEEcCC----CCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCC----HHH----HHHHHH--HCCC
Q psy8001          71 CNLYVGNL----TWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS----EES----MSLVME--RLPT  136 (172)
Q Consensus        71 ~~v~V~nL----~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~----~~~----a~~al~--~l~g  136 (172)
                      ..|||+||    ++.+++.+|+++|+.||  .|.++.++.|+.||.++|||||+|.+    .++    |.+|+.  .|||
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fG--eV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng   80 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYG--EISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSG   80 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTS--CCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTC
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcC--CeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcC
Confidence            58999999    99999999999999999  89999999999999999999999995    322    788888  7899


Q ss_pred             ceeCCcccEEeccCCCC
Q psy8001         137 LELHGRKPMVAYPTRNV  153 (172)
Q Consensus       137 ~~l~g~~l~v~~a~~~~  153 (172)
                      ..|+|++|+|.+.+...
T Consensus        81 ~~I~Gr~irV~ln~~g~   97 (136)
T 2j8a_A           81 CFIMGFKFEVILNKHSI   97 (136)
T ss_dssp             EEETTEEEEEEECCTTH
T ss_pred             CeecCcEEEEEECcccH
Confidence            99999999999887543

>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=99.76  E-value=2.3e-18  Score=116.46  Aligned_cols=76  Identities=14%  Similarity=0.094  Sum_probs=70.1

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..+.|+.      .+|||||+|.+.++|+.||+.|||..|.|+.|.|.|
T Consensus         9 ~~~~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            9 SKTVILAKNLPAGTLAAEIQETFSRFG--SLGRVLLPE------GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEW   80 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTS--CEEEEECCS------SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC--CEEEEEEeC------CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            457999999999999999999999999  899988753      568999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      ++..
T Consensus        81 a~~~   84 (111)
T 1whx_A           81 APIG   84 (111)
T ss_dssp             EETT
T ss_pred             CCCC
Confidence            9753

>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=99.75  E-value=6.4e-18  Score=121.48  Aligned_cols=80  Identities=16%  Similarity=0.345  Sum_probs=76.6

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ...+|||+|||+.+++++|+++|++||  .+..+.++.++.+|.++|||||+|.+.++|.+|++.|||..++|++|.|++
T Consensus        93 ~~~~l~v~nlp~~~t~~~l~~~f~~~G--~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~  170 (172)
T 2g4b_A           93 GAHKLFIGGLPNYLNDDQVKELLTSFG--PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQR  170 (172)
T ss_dssp             TTTCEEEECCCTTCCHHHHHHHHHTTS--CEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCEEEEEcCCCcCCHHHHHHHHHhcC--CceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEECCeEEEEEe
Confidence            367899999999999999999999999  999999999988999999999999999999999999999999999999998


Q ss_pred             cC
Q psy8001         149 PT  150 (172)
Q Consensus       149 a~  150 (172)
                      |.
T Consensus       171 As  172 (172)
T 2g4b_A          171 AS  172 (172)
T ss_dssp             CC
T ss_pred             CC
Confidence            73

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=1.7e-17  Score=109.32  Aligned_cols=75  Identities=19%  Similarity=0.182  Sum_probs=68.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+||  .+++++|+++|++||  .|..+.|.      .++|||||+|.+.++|++||+.|||..|.|+.|+|.
T Consensus        13 ~~~~~l~V~n~--~~t~~~l~~~F~~~G--~i~~v~i~------~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~   82 (97)
T 1x5p_A           13 RKGNTLYVYGE--DMTPTLLRGAFSPFG--NIIDLSMD------PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVN   82 (97)
T ss_dssp             CCCSEEEEECS--SCCHHHHHHHHTTTS--CEEEEEEE------TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEE
T ss_pred             CCCCEEEEcCC--CCCHHHHHHHHhhCC--CEEEEEec------CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEE
Confidence            35679999996  899999999999999  89999884      467999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +++++
T Consensus        83 ~a~~~   87 (97)
T 1x5p_A           83 IARKQ   87 (97)
T ss_dssp             CCSSC
T ss_pred             ECCCC
Confidence            99764

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

Probab=99.75  E-value=4.5e-18  Score=127.18  Aligned_cols=79  Identities=20%  Similarity=0.331  Sum_probs=74.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..+|||+||++.+++++|+++|++||  .|..++|++++  +.++|||||+|.+.++|++||+.|||..|+|++|+|.++
T Consensus       103 ~~~l~v~nl~~~~t~~~l~~~F~~~G--~i~~~~i~~d~--~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a  178 (213)
T 4f02_A          103 VGNIFIKNLDKSIDNKALYDTFSAFG--NILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF  178 (213)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEEET--TEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cccceECCcccccHHHHHHHHHhhcC--CeEEEEeeccC--CCCceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            46899999999999999999999999  99999999985  457999999999999999999999999999999999999


Q ss_pred             CCC
Q psy8001         150 TRN  152 (172)
Q Consensus       150 ~~~  152 (172)
                      +++
T Consensus       179 ~~~  181 (213)
T 4f02_A          179 KSR  181 (213)
T ss_dssp             CCH
T ss_pred             CCC
Confidence            864

>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=99.75  E-value=9.4e-18  Score=123.01  Aligned_cols=85  Identities=19%  Similarity=0.320  Sum_probs=78.3

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|+.||  .|..+.++.++.+|.++|||||+|.+.++|++||+. ++..+.|+.|
T Consensus         8 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l   84 (196)
T 1l3k_A            8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWG--TLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVV   84 (196)
T ss_dssp             CCCGGGGEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEETTEEC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhCC--CEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhc-CCCEECCEEe
Confidence            3445678999999999999999999999999  899999999998999999999999999999999985 9999999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      .|.++...
T Consensus        85 ~v~~~~~~   92 (196)
T 1l3k_A           85 EPKRAVSR   92 (196)
T ss_dssp             EEEECCC-
T ss_pred             eeecccCc
Confidence            99998764

>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=99.75  E-value=6.7e-19  Score=123.71  Aligned_cols=82  Identities=15%  Similarity=0.170  Sum_probs=73.5

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  . ..|+|+.|+. |+++|||||+|.+.++|++|| .+|+..|+||.|+|
T Consensus        43 ~~~~~~lfV~nLp~~~te~dL~~~F~~~G--i-~~v~i~~d~~-g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V  117 (139)
T 2hgn_A           43 STTGHCVHMRGLPYKATENDIYNFFSPLN--P-VRVHIEIGPD-GRVTGEADVEFATHEEAVAAM-SKDRANMQHRYIEL  117 (139)
T ss_dssp             --CCCCEECCSCCTTCCHHHHHHHHCSCC--C-SEEECCCSSS-SCSSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC--C-eEEEEEECCC-CCCceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEE
Confidence            34567999999999999999999999999  3 3899999984 999999999999999999999 68999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      ..+.+..
T Consensus       118 ~~a~~~~  124 (139)
T 2hgn_A          118 FLNSTTG  124 (139)
T ss_dssp             EECCCSC
T ss_pred             EECCCCC
Confidence            9987653

>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=99.74  E-value=3.3e-18  Score=122.41  Aligned_cols=81  Identities=20%  Similarity=0.326  Sum_probs=76.7

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ...+|||+|||..+++++|+++|++||  .|..+.++.++.+|.++|||||+|.+.++|.+|++ ++|..++|+.|.|.+
T Consensus        86 ~~~~l~V~nlp~~~t~~~l~~~F~~~G--~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V~~  162 (167)
T 2cjk_A           86 KTGKIFVGGIGPDVRPKEFEEFFSQWG--TIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEIKR  162 (167)
T ss_dssp             HCEEEEEEEECTTCCHHHHHHHHHTTS--CCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHH-CSEECSSSSCEEEEE
T ss_pred             CCCeEEECCCCCCCCHHHHHHHHHhCc--cEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHh-CCCEEeCCeEEEEee
Confidence            356899999999999999999999999  89999999998899999999999999999999998 899999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      +.++
T Consensus       163 a~pk  166 (167)
T 2cjk_A          163 AEPR  166 (167)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            9864

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

Probab=99.74  E-value=1.4e-17  Score=115.25  Aligned_cols=80  Identities=14%  Similarity=0.149  Sum_probs=72.0

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccE-EEEEeCCHHHHHHHHHHCCCceeCC--ccc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGF-CTVTLGSEESMSLVMERLPTLELHG--RKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~-afv~f~~~~~a~~al~~l~g~~l~g--~~l  144 (172)
                      ..-..|||+||++.+++++|+++|++||  .|.+|.++.+     .+|| |||+|.+.++|+.|++.|||..|.|  +.|
T Consensus        26 s~VL~I~V~NL~~~vte~~L~~lFs~yG--~V~~V~i~~~-----~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~L   98 (130)
T 3zzy_A           26 SPVLRIIVENLFYPVTLDVLHQIFSKFG--TVLKIITFTK-----NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTL   98 (130)
T ss_dssp             CSEEEEEEESCCSCCCHHHHHHHHTTSS--CEEEEEEEEE-----TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEE
T ss_pred             CceEEEEECCCCCCCCHHHHHHHHhCcC--CEEEEEEEcC-----CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEE
Confidence            4456899999999999999999999999  9999988764     3677 9999999999999999999999988  899


Q ss_pred             EEeccCCCCc
Q psy8001         145 MVAYPTRNVL  154 (172)
Q Consensus       145 ~v~~a~~~~~  154 (172)
                      +|+++++...
T Consensus        99 rI~~ak~~~l  108 (130)
T 3zzy_A           99 RIDFSKLTSL  108 (130)
T ss_dssp             EEEECSCSSC
T ss_pred             EEEecCCCce
Confidence            9999997643

>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=99.73  E-value=1.3e-17  Score=113.07  Aligned_cols=78  Identities=13%  Similarity=0.080  Sum_probs=69.2

Q ss_pred             CCCcceEEE--cCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee-----
Q psy8001          67 SSSHCNLYV--GNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL-----  139 (172)
Q Consensus        67 ~~~~~~v~V--~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l-----  139 (172)
                      ..+..+|||  |||++.+++++|+++|++||  .|..+.|+.      .+|||||+|.+.++|++|++.|||..|     
T Consensus        22 ~~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG--~v~~v~i~~------~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg   93 (114)
T 2cq2_A           22 SYATQSLVVANGGLGNGVSRNQLLPVLEKCG--LVDALLMPP------NKPYSFARYRTTEESKRAYVTLNGKEVVDDLG   93 (114)
T ss_dssp             SSCCSEEEEETCTGGGTCCHHHHHHHHHHHS--CEEEEECCT------TCSCEEEEESSHHHHHHHHHHTTTCEEECTTS
T ss_pred             CCCCCEEEEECCCCCCCCCHHHHHHHHHhcC--CeEEEEEeC------CCCEEEEEECCHHHHHHHHHHhCCCEEccccC
Confidence            344678999  77999999999999999999  899887753      368999999999999999999999998     


Q ss_pred             CCcccEEeccCCC
Q psy8001         140 HGRKPMVAYPTRN  152 (172)
Q Consensus       140 ~g~~l~v~~a~~~  152 (172)
                      .|+.|.|.+++..
T Consensus        94 ~g~~l~v~~a~~~  106 (114)
T 2cq2_A           94 QKITLYLNFVEKV  106 (114)
T ss_dssp             CEEECEEEEESCC
T ss_pred             CCcEEEEEecccC
Confidence            7899999999753

>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=99.73  E-value=1.9e-17  Score=121.32  Aligned_cols=83  Identities=17%  Similarity=0.288  Sum_probs=75.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|+.||  .|..+.++.++.+|.++|||||+|.+.++|.+||.. +|..|+|+.|.|.
T Consensus       102 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~-~~~~~~G~~i~v~  178 (196)
T 1l3k_A          102 LTVKKIFVGGIKEDTEEHHLRDYFEQYG--KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ-KYHTVNGHNCEVR  178 (196)
T ss_dssp             -CCSEEEEECCTTTCCHHHHHHHHTTTS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHC-SCCEETTEECEEE
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCC--CeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHh-CCcEECCEEEEEE
Confidence            3457999999999999999999999999  999999999998999999999999999999999985 8999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      ++.++.
T Consensus       179 ~a~~k~  184 (196)
T 1l3k_A          179 KALSKQ  184 (196)
T ss_dssp             ECC---
T ss_pred             ecCChh
Confidence            998653

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

Probab=99.73  E-value=9.3e-17  Score=110.51  Aligned_cols=79  Identities=14%  Similarity=0.132  Sum_probs=69.9

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccE-EEEEeCCHHHHHHHHHHCCCceeCC--ccc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGF-CTVTLGSEESMSLVMERLPTLELHG--RKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~-afv~f~~~~~a~~al~~l~g~~l~g--~~l  144 (172)
                      .....|||+||++.+++++|+++|++||  .|..|.|+. +     .|| |||+|.+.++|..|++.|||..|.|  +.|
T Consensus        23 s~vl~l~V~NL~~~vt~~~L~~~Fs~yG--~V~~v~i~~-~-----~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l   94 (124)
T 2e5i_A           23 NKVLLLSIQNPLYPITVDVLYTVCNPVG--KVQRIVIFK-R-----NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTL   94 (124)
T ss_dssp             CSEEEEEEESCCSCCCHHHHHHHHTTTS--CEEEEEEEE-S-----SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEE
T ss_pred             CcEEEEEEcCcCCCCCHHHHHHHHHhcC--CEEEEEEEe-C-----CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEE
Confidence            3445689999999999999999999999  999999864 2     276 9999999999999999999999988  689


Q ss_pred             EEeccCCCCc
Q psy8001         145 MVAYPTRNVL  154 (172)
Q Consensus       145 ~v~~a~~~~~  154 (172)
                      +|.+|+++.+
T Consensus        95 ~V~~Ak~~~l  104 (124)
T 2e5i_A           95 KIEYARPTRL  104 (124)
T ss_dssp             EEECCSCSCC
T ss_pred             EEEEecCCcc
Confidence            9999997653

>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=99.73  E-value=1.5e-17  Score=123.95  Aligned_cols=78  Identities=17%  Similarity=0.150  Sum_probs=72.3

Q ss_pred             CcceEEEcCCC-CCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          69 SHCNLYVGNLT-WWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        69 ~~~~v~V~nL~-~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ++++|||+||+ +.+++++|+++|++||  .|..|+|+.+     .+|||||+|.+.++|++||+.|||..|.|+.|+|.
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G--~v~~v~i~~~-----~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~   75 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYG--NVEKVKFMKS-----KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVC   75 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTS--CEEEEEECTT-----STTCEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcC--CeEEEEEecC-----CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEE
Confidence            56799999999 8999999999999999  9999999765     37999999999999999999999999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      +++...
T Consensus        76 ~s~~~~   81 (205)
T 3tyt_A           76 VSKQPA   81 (205)
T ss_dssp             ECSCSC
T ss_pred             EccCCc
Confidence            997543

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

Probab=99.73  E-value=1.9e-17  Score=123.09  Aligned_cols=83  Identities=22%  Similarity=0.332  Sum_probs=75.4

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|+.||  .|..+.+++++.+|.++|||||+|.+.++|++|++.|||..|.|+.|.|.+
T Consensus        27 ~~~~l~V~nLp~~~t~~~l~~~f~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~  104 (216)
T 2qfj_A           27 IMSRVYVGSIYYELGEDTIRQAFAPFG--PIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGR  104 (216)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHGGGS--CEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEEC
T ss_pred             cCCEEEEECCCCCCCHHHHHHHHHhCC--CEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEec
Confidence            357899999999999999999999999  999999999998999999999999999999999999999999999999998


Q ss_pred             cCCCC
Q psy8001         149 PTRNV  153 (172)
Q Consensus       149 a~~~~  153 (172)
                      +....
T Consensus       105 ~~~~~  109 (216)
T 2qfj_A          105 PSNIG  109 (216)
T ss_dssp             CSCCG
T ss_pred             CCCcc
Confidence            87643

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

Probab=99.72  E-value=2e-17  Score=117.94  Aligned_cols=80  Identities=16%  Similarity=0.251  Sum_probs=74.3

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      .+|||+|||..+++++|+++|++||  .|..+.++.++ +++++|||||+|.+.++|.+|++.|||..+.|+.|.|.++.
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G--~i~~v~i~~~~-~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~   77 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGG--PIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAF   77 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGS--CEEEEEEECCC-C-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcC--CeEEEEEEECC-CCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcC
Confidence            3799999999999999999999999  99999999998 67899999999999999999999999999999999999997


Q ss_pred             CCC
Q psy8001         151 RNV  153 (172)
Q Consensus       151 ~~~  153 (172)
                      +..
T Consensus        78 ~~~   80 (166)
T 3md3_A           78 QSQ   80 (166)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>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=99.72  E-value=3.7e-17  Score=116.94  Aligned_cols=80  Identities=19%  Similarity=0.300  Sum_probs=75.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC--cccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG--RKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g--~~l~  145 (172)
                      ...++|||+|||..+++++|+++|++||  .+..+.+++++.+|.++|||||+|.+.++|.+|++.|||..+.|  ++|+
T Consensus        87 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G--~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~  164 (168)
T 1b7f_A           87 IKDTNLYVTNLPRTITDDQLDTIFGKYG--SIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLS  164 (168)
T ss_dssp             TTTCEEEEESCCTTCCHHHHHHHHTSSS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCE
T ss_pred             CCCCCEEEeCCCCCCCHHHHHHhhhcCC--cEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEE
Confidence            3457999999999999999999999999  99999999999899999999999999999999999999999988  9999


Q ss_pred             Eecc
Q psy8001         146 VAYP  149 (172)
Q Consensus       146 v~~a  149 (172)
                      |++|
T Consensus       165 V~~A  168 (168)
T 1b7f_A          165 VRLA  168 (168)
T ss_dssp             EEEC
T ss_pred             EEeC
Confidence            9986

>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=99.72  E-value=1.5e-17  Score=107.68  Aligned_cols=75  Identities=15%  Similarity=0.163  Sum_probs=67.7

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++|.   +..+++.      +++|||||+|.+.++|++|++.|||..++|++|+|++
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~~---v~~~~i~------~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~   74 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDYD---LKYCYVD------RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQL   74 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC---CCCEEEE------GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhCC---eEEEEEe------CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEE
Confidence            457899999999999999999999994   5666663      5789999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      +...
T Consensus        75 a~~~   78 (88)
T 1wg1_A           75 QPTD   78 (88)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            9753

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.72  E-value=4.8e-17  Score=105.75  Aligned_cols=71  Identities=17%  Similarity=0.281  Sum_probs=63.4

Q ss_pred             ceEEEcCCCCCCCHHH----HHHHHHhc-CCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          71 CNLYVGNLTWWTTEAD----MSDAIRSI-GVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~----l~~~f~~~-g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      +.|||+|||+.+++++    |+++|++| |  .|..|       ++   |||||.|.+.++|.+|++.|||..+.||.|+
T Consensus        10 T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG--~Vl~V-------tg---G~AfV~F~~~esA~~A~~~l~G~~l~gr~i~   77 (96)
T 2diu_A           10 TLLYVYNLPANKDGKSVSNRLRRLSDNCGG--KVLSI-------TG---CSAILRFINQDSAERAQKRMENEDVFGNRII   77 (96)
T ss_dssp             EEEEEESCCTTSCHHHHHHHHHHHHHTTTC--CEEEC-------CT---TCEEEEESSHHHHHHHHHHHTTCCSSSSCCE
T ss_pred             eEEEEeCCCCcCCHHHHHHHHHHHHHHcCC--eeEEE-------ec---CEEEEEECCHHHHHHHHHHhcCCccCCceEE
Confidence            3499999999999988    55899999 7  67776       34   9999999999999999999999999999999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |.+|+...
T Consensus        78 v~~A~~~s   85 (96)
T 2diu_A           78 VSFTPKNR   85 (96)
T ss_dssp             EESSCCSC
T ss_pred             EEecCCCc
Confidence            99998643

>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=99.72  E-value=4.5e-17  Score=116.13  Aligned_cols=79  Identities=18%  Similarity=0.286  Sum_probs=74.3

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc--cEE
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK--PMV  146 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~--l~v  146 (172)
                      ...+|||+|||..+++++|+++|++||  .+..+.++.++.+|.++|||||+|.+.++|.+|++.|||..+.|+.  |+|
T Consensus        87 ~~~~l~v~nl~~~~t~~~l~~~f~~~G--~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v  164 (167)
T 1fxl_A           87 RDANLYVSGLPKTMTQKELEQLFSQYG--RIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITV  164 (167)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEE
T ss_pred             CCCcEEECCCCCcCCHHHHHHHHHhcC--CEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcCCccCCCccceEE
Confidence            457899999999999999999999999  9999999999889999999999999999999999999999999975  888


Q ss_pred             ecc
Q psy8001         147 AYP  149 (172)
Q Consensus       147 ~~a  149 (172)
                      +||
T Consensus       165 ~~A  167 (167)
T 1fxl_A          165 KFA  167 (167)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            875

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

Probab=99.71  E-value=1.1e-17  Score=113.52  Aligned_cols=78  Identities=19%  Similarity=0.319  Sum_probs=67.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCC---CCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASN---GQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~---g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ...++|||+|||+.+++++|+++|++||  .|. +.++.++.+   |+++|||||+|.+.++|++||+.|+  .++|+.|
T Consensus         6 ~~~~~lfVgnLp~~~te~~L~~~F~~~G--~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~--~~~G~~~   80 (114)
T 2dnl_A            6 SGSRKVFVGGLPPDIDEDEITASFRRFG--PLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACL--EEDGKLY   80 (114)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHTTTTC--CCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSE--EETTEEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcC--CEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhh--hcCCcEE
Confidence            3457899999999999999999999999  787 888888766   7899999999999999999999984  3677777


Q ss_pred             EEeccC
Q psy8001         145 MVAYPT  150 (172)
Q Consensus       145 ~v~~a~  150 (172)
                      .+..+.
T Consensus        81 ~~~~~~   86 (114)
T 2dnl_A           81 LCVSSP   86 (114)
T ss_dssp             EEECCS
T ss_pred             EeccCC
Confidence            766554

>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=99.70  E-value=3.3e-17  Score=106.52  Aligned_cols=75  Identities=16%  Similarity=0.220  Sum_probs=62.3

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCce--eCCccc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLE--LHGRKP  144 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~--l~g~~l  144 (172)
                      ....++|||+|||+.+++++|+++|++||  .|..++|+++     ++|||||+|.+.++|++    |++..  +.|++|
T Consensus         8 ~~~~~~l~V~~Lp~~~te~~L~~~F~~~G--~i~~v~i~~~-----srGfaFV~F~~~~~A~~----~~~~~~~~~g~~v   76 (89)
T 3d2w_A            8 HHHGSKVFVGRCTEDMTAEELQQFFCQYG--EVVDVFIPKP-----FRAFAFVTFADDKVAQS----LCGEDLIIKGISV   76 (89)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHTTTS--CEEEEECCSS-----CCSEEEEEESCHHHHHH----HTTCEEEETTEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccC--CEEEEEEeeC-----CCCEEEEEECCHHHHHH----HcCCCcccCCEEE
Confidence            34567999999999999999999999999  9999998774     68999999999999883    45554  569999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      .|.++.++
T Consensus        77 ~v~~a~~k   84 (89)
T 3d2w_A           77 HISNAEPK   84 (89)
T ss_dssp             EEEECC--
T ss_pred             EEEEcCCC
Confidence            99999764

>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=99.70  E-value=8.7e-17  Score=115.60  Aligned_cols=80  Identities=16%  Similarity=0.301  Sum_probs=73.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC---Cccc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH---GRKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~---g~~l  144 (172)
                      ....+|||+|||+.+++++|+++|++||  .|..+.++.++ +|.++|||||+|.+.++|.+|++.|||..+.   |+.|
T Consensus        93 ~~~~~l~v~nl~~~~t~~~l~~~F~~~G--~i~~v~~~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l  169 (175)
T 3nmr_A           93 VEDRKLFIGMISKKCTENDIRVMFSSFG--QIEECRILRGP-DGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPM  169 (175)
T ss_dssp             GGGSEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCC
T ss_pred             CCCCeEEEcCCCCcCCHHHHHHHHHhCC--CEEEEEEEECC-CCCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCe
Confidence            3567899999999999999999999999  89999999987 6899999999999999999999999999776   4999


Q ss_pred             EEeccC
Q psy8001         145 MVAYPT  150 (172)
Q Consensus       145 ~v~~a~  150 (172)
                      .|.+|.
T Consensus       170 ~V~~ad  175 (175)
T 3nmr_A          170 VVKFAD  175 (175)
T ss_dssp             EEEECC
T ss_pred             EEEecC
Confidence            999873

>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=99.70  E-value=8.1e-17  Score=115.76  Aligned_cols=81  Identities=17%  Similarity=0.294  Sum_probs=74.0

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCC--CcccEEEEEeCCHHHHHHHHHHCCCceeC---Ccc
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNG--QSKGFCTVTLGSEESMSLVMERLPTLELH---GRK  143 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g--~~~g~afv~f~~~~~a~~al~~l~g~~l~---g~~  143 (172)
                      +.++|||+|||+.+++++|+++|++||  .|..+++++++.++  +++|||||+|.+.++|++|++.|||..+.   ++.
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G--~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~   79 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYG--AVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHP   79 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTS--CEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCC--CEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccc
Confidence            457999999999999999999999999  99999999999776  89999999999999999999999998776   577


Q ss_pred             cEEeccCC
Q psy8001         144 PMVAYPTR  151 (172)
Q Consensus       144 l~v~~a~~  151 (172)
                      +.+.++..
T Consensus        80 ~~~~~~~~   87 (175)
T 3nmr_A           80 IQMKPADS   87 (175)
T ss_dssp             CEEEECGG
T ss_pred             eEEccccc
Confidence            88887764

>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=99.69  E-value=1.6e-16  Score=117.43  Aligned_cols=78  Identities=14%  Similarity=0.196  Sum_probs=72.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .++|||+|||+.+++++|+++|++||  .|..|+|+++. +|.++|||||+|.+.++|++|++.+ +..++|+.|.|.++
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F~~~G--~v~~v~i~~~~-~~~~kG~aFVeF~~~e~A~~A~~~~-~~~~~Gr~l~V~~~  184 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWLEDKG--QVLNIQMRRTL-HKAFKGSIFVVFDSIESAKKFVETP-GQKYKETDLLILFK  184 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHTTSC--CEEEEEEEECT-TCCEEEEEEEEESSHHHHHHHHHCT-TCEETTEECEEEET
T ss_pred             cCEEEecCCCCcCCHHHHHHHHhcCC--CEEEEEEEECC-CCCcccEEEEEECCHHHHHHHHHhC-CCeECCEEEEEEEh
Confidence            57899999999999999999999999  99999999987 6889999999999999999999865 56999999999988


Q ss_pred             CC
Q psy8001         150 TR  151 (172)
Q Consensus       150 ~~  151 (172)
                      +.
T Consensus       185 ~~  186 (193)
T 2voo_A          185 DD  186 (193)
T ss_dssp             TT
T ss_pred             HH
Confidence            64

>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=99.69  E-value=1.5e-16  Score=123.26  Aligned_cols=83  Identities=11%  Similarity=0.235  Sum_probs=75.4

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHH----HHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMS----DAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~----~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      .....++|||+|||+.+++++|+    ++|+.||  .|..|++++   +++++|||||+|.+.++|++||+.|||..|.|
T Consensus         5 ~~~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G--~i~~v~~~~---~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   79 (282)
T 3pgw_A            5 ETRPNHTIYINNLNEKIKKDELKKSLYAIFSQFG--QILDILVSR---SLKMRGQAFVIFKEVSSATNALRSMQGFPFYD   79 (282)
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHHHhccC--CeEEEEEcC---CCCcceEEEEEECCHHHHHHHHHHhcCCeeCC
Confidence            44567899999999999999977    8999999  899998875   78899999999999999999999999999999


Q ss_pred             cccEEeccCCCC
Q psy8001         142 RKPMVAYPTRNV  153 (172)
Q Consensus       142 ~~l~v~~a~~~~  153 (172)
                      +.|+|.+++...
T Consensus        80 ~~l~v~~a~~~~   91 (282)
T 3pgw_A           80 KPMRIQYAKTDS   91 (282)
T ss_pred             cEEEEEEeccCc
Confidence            999999997644

>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=99.69  E-value=7.5e-17  Score=115.33  Aligned_cols=79  Identities=23%  Similarity=0.472  Sum_probs=73.9

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      +.++|||+|||+.+++++|+++|+.||  .+..+++++++.+|.++|||||+|.+.++|++|++  ++..+.|+.|.|.+
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g~~i~v~~   77 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYG--TVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK--TQHILDGKVIDPKR   77 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTC--CEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHH--SCCEETTEECCCEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCC--CEEEEEEEECCCCCCccceEEEEEccHHHHHHHHh--cccccCCeEccccc
Confidence            357999999999999999999999999  99999999999899999999999999999999999  46799999999998


Q ss_pred             cCC
Q psy8001         149 PTR  151 (172)
Q Consensus       149 a~~  151 (172)
                      +.+
T Consensus        78 ~~~   80 (167)
T 2cjk_A           78 AIP   80 (167)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            865

>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=99.68  E-value=2e-16  Score=101.85  Aligned_cols=73  Identities=23%  Similarity=0.377  Sum_probs=63.9

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhc----CCC-----CeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSI----GVP-----DFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL  139 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~----g~~-----~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l  139 (172)
                      ..++|||+|||+.+++++|+++|++|    |..     .+..+.+..+      +|||||+|.+.++|++|+ .|||..+
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~------kg~afV~f~~~~~a~~A~-~l~g~~~   77 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD------KNFAFLEFRSVDETTQAM-AFDGIIF   77 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS------SSEEEEEESSHHHHHHHG-GGTTCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC------CcEEEEEcCCHHHHHHHH-hcCCCEE
Confidence            45799999999999999999999999    621     2667776543      799999999999999999 8999999


Q ss_pred             CCcccEEec
Q psy8001         140 HGRKPMVAY  148 (172)
Q Consensus       140 ~g~~l~v~~  148 (172)
                      +|+.|+|+.
T Consensus        78 ~g~~l~V~r   86 (87)
T 2hzc_A           78 QGQSLKIRR   86 (87)
T ss_dssp             TTEECEEEC
T ss_pred             CCeEEEEeC
Confidence            999999984

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.68  E-value=3.9e-16  Score=104.50  Aligned_cols=81  Identities=12%  Similarity=0.044  Sum_probs=71.6

Q ss_pred             CcceEEEcCCCC-----CCCHHHHHHHHHhcCCCCeEEEEEEecCCC-CCcccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          69 SHCNLYVGNLTW-----WTTEADMSDAIRSIGVPDFIDVKFFENASN-GQSKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        69 ~~~~v~V~nL~~-----~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~-g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      +...|+|.||..     .-++++|++.|++||  .|..+.|+.++.+ +.++|||||+|.+.++|.+|++.|||..++||
T Consensus         7 ~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G--~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr   84 (105)
T 2pe8_A            7 PTKVVLLRNMVGAGEVDEDLEVETKEECEKYG--KVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGR   84 (105)
T ss_dssp             CCSEEEEESSSCSCCC---CHHHHHHHGGGGS--CEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEEcCCChHHhhHHHHHHHHHHHHhcC--CEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCc
Confidence            456899999963     236899999999999  9999999998754 67899999999999999999999999999999


Q ss_pred             ccEEeccCC
Q psy8001         143 KPMVAYPTR  151 (172)
Q Consensus       143 ~l~v~~a~~  151 (172)
                      .|.|.++..
T Consensus        85 ~i~v~~a~~   93 (105)
T 2pe8_A           85 VVKACFYNL   93 (105)
T ss_dssp             ECEEEECCH
T ss_pred             EEEEEEcCH
Confidence            999999964

>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=99.67  E-value=1.1e-16  Score=115.42  Aligned_cols=78  Identities=22%  Similarity=0.322  Sum_probs=70.7

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ....+|||+|||..+++++|+++|++||  .+..+     ..++.++|||||+|.+.++|.+|++.|||..|+|+.|+|+
T Consensus        97 ~~~~~l~v~nlp~~~t~~~l~~~F~~~g--~v~~~-----~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~  169 (175)
T 1fje_B           97 RAARTLLAKNLSFNITEDELKEVFEDAL--EIRLV-----SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLY  169 (175)
T ss_dssp             GGGGEEEEESCCSSCCHHHHHHHCTTCS--EEEEE-----CSSSSCCSEEEEECSSHHHHHHHHHHHTEEEETTEEEEEE
T ss_pred             ccCCEEEEeCCCCCCCHHHHHHHHHhcC--eEEEe-----cCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            3567999999999999999999999999  55544     4488899999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +++++
T Consensus       170 ~a~~k  174 (175)
T 1fje_B          170 YTGEK  174 (175)
T ss_dssp             ECSSC
T ss_pred             ecCCC
Confidence            99764

>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=99.67  E-value=2.3e-16  Score=119.10  Aligned_cols=79  Identities=23%  Similarity=0.256  Sum_probs=73.4

Q ss_pred             CCCcceEEEcCCCC-CCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          67 SSSHCNLYVGNLTW-WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        67 ~~~~~~v~V~nL~~-~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ..+.++|||+|||+ .+++++|+++|++||  .|..++++.++     +|||||+|.+.++|++|++.|||..|.|+.|.
T Consensus        31 ~~~~~~l~V~nLp~~~~te~~L~~~F~~~G--~i~~v~i~~~~-----~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~  103 (229)
T 2adc_A           31 GAGNSVLLVSNLNPERVTPQSLFILFGVYG--DVQRVKILFNK-----KENALVQMADGNQAQLAMSHLNGHKLHGKPIR  103 (229)
T ss_dssp             CCCCSEEEEESCCTTTCCHHHHHHHHHHHT--CEEEEEECCTT-----SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhCC--CeEEEEEEECC-----CCEEEEEECCHHHHHHHHHHhCCCeECCeEEE
Confidence            45668999999999 999999999999999  89999998875     78999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.+++..
T Consensus       104 v~~a~~~  110 (229)
T 2adc_A          104 ITLSKHQ  110 (229)
T ss_dssp             EECCSCC
T ss_pred             EEEecCc
Confidence            9999854

>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=99.67  E-value=2.6e-15  Score=116.20  Aligned_cols=78  Identities=14%  Similarity=0.211  Sum_probs=71.9

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC-Cccc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH-GRKP  144 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~-g~~l  144 (172)
                      .....++|||+||+..+++++|+++|++||  .|..++++.++     +|||||+|.+.++|++|++.|||..|. |+.|
T Consensus       203 ~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G--~i~~v~~~~~~-----~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l  275 (282)
T 3pgw_A          203 ENPPNHILFLTNLPEETNELMLSMLFNQFP--GFKEVRLVPGR-----HDIAFVEFDNEVQAGAARDALQGFKITQNNAM  275 (282)
T ss_pred             CCCCCCEEEEeCCCCcCCHHHHHHHHHhcC--CeEEEEEecCC-----CcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEE
Confidence            344578899999999999999999999999  99999998654     589999999999999999999999999 9999


Q ss_pred             EEeccC
Q psy8001         145 MVAYPT  150 (172)
Q Consensus       145 ~v~~a~  150 (172)
                      +|.|++
T Consensus       276 ~v~~ak  281 (282)
T 3pgw_A          276 KISFAK  281 (282)
T ss_pred             EEEEec
Confidence            999986

>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=99.66  E-value=5.6e-17  Score=104.90  Aligned_cols=75  Identities=19%  Similarity=0.269  Sum_probs=64.0

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..+.|+.+     ++|||||+|.+.++|++|+.  ....+.|++|.|.+
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G--~i~~v~i~~~-----~~g~afV~f~~~~~a~~~~~--~~~~~~g~~l~v~~   74 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYG--DVMDVFIPKP-----FRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISN   74 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTS--CCCEEECCSS-----CCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcC--CeeEEEEecC-----CCCEEEEEECCHHHHHHHhc--CCceeCCEEEEEEe
Confidence            457999999999999999999999999  8999998754     68999999999999975433  23456899999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      ++++
T Consensus        75 a~~~   78 (88)
T 1wf0_A           75 AEPK   78 (88)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            9764

>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=99.66  E-value=5.1e-16  Score=120.31  Aligned_cols=82  Identities=21%  Similarity=0.227  Sum_probs=78.0

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|+.||  .+..+.++.++.+|.++|||||+|.+.++|.+|++.|||..++|+.|.|.+
T Consensus        94 ~~~~l~v~nlp~~~t~~~l~~~f~~~G--~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~  171 (284)
T 3smz_A           94 TDALLCVANLPPSLTQQQFEELVRPFG--SLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHW  171 (284)
T ss_dssp             CSCEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHHhcC--CeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            456999999999999999999999999  899999999998999999999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      +.+.
T Consensus       172 a~~~  175 (284)
T 3smz_A          172 TDAG  175 (284)
T ss_dssp             CCGG
T ss_pred             CCCC
Confidence            9764

>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=99.66  E-value=2.1e-16  Score=122.93  Aligned_cols=83  Identities=10%  Similarity=0.144  Sum_probs=75.8

Q ss_pred             CCCcceEEEcCCCCC-CCHHHHHHHHHhcCCCCeEEEEEEecCC-CCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          67 SSSHCNLYVGNLTWW-TTEADMSDAIRSIGVPDFIDVKFFENAS-NGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~-~~~~~l~~~f~~~g~~~~~~~~i~~~~~-~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      .....+|||+|||+. +++++|+++|+.||  .|..++++.+.. ||.++|||||+|.+.++|.+|+ .|||..|+|+.|
T Consensus       207 ~~~~~~l~v~nlp~~~~t~~~l~~~F~~~G--~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l~g~~~~g~~i  283 (292)
T 2ghp_A          207 TLEGREIMIRNLSTELLDENLLRESFEGFG--SIEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QMNRSLLGNREI  283 (292)
T ss_dssp             CCTTTEEEEEEECTTTCCHHHHHHHHGGGS--CEEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GGTTEEETTEEE
T ss_pred             CCCCceEEEECCCcccCCHHHHHHHHhccC--CeeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHH-HhcCCEECCcEE
Confidence            345679999999999 99999999999999  999999999875 5899999999999999999999 999999999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      .|.+++++
T Consensus       284 ~V~~a~~k  291 (292)
T 2ghp_A          284 SVSLADKK  291 (292)
T ss_dssp             EEEECCCC
T ss_pred             EEEEecCC
Confidence            99999864

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

Probab=99.66  E-value=2.8e-16  Score=119.35  Aligned_cols=79  Identities=19%  Similarity=0.309  Sum_probs=70.6

Q ss_pred             CCCcceEEEcCCCCCC---------CHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc
Q psy8001          67 SSSHCNLYVGNLTWWT---------TEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL  137 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~---------~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~  137 (172)
                      .....+||||||+..+         ++++|+.+|++||  .|..|+|+.      ++|||||+|.+.++|+.|++.|+|.
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG--~I~~v~v~~------~kG~AFV~F~~~~~Ae~A~~am~g~  202 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLG--DIDRIRYVE------SKNCGFVKFKYQANAEFAKEAMSNQ  202 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTS--CEEEEEEEG------GGTEEEEEESSHHHHHHHHHHHTTC
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccC--CEEEEEEEC------CCCEEEEEeCCHHHHHHHHHHhCCC
Confidence            3456799999999998         7999999999999  999999985      4799999999999999999999999


Q ss_pred             ee------------CCcccEEeccCCCC
Q psy8001         138 EL------------HGRKPMVAYPTRNV  153 (172)
Q Consensus       138 ~l------------~g~~l~v~~a~~~~  153 (172)
                      .|            .|+.|.|.||+..+
T Consensus       203 ~l~~~~~~e~~~~~~gr~L~V~wA~~~p  230 (240)
T 3u1l_A          203 TLLLPSDKEWDDRREGTGLLVKWANEDP  230 (240)
T ss_dssp             CCCCTTSTTGGGGGGSCCCEEEECC---
T ss_pred             EEeccccccccccCCCCEEEEEEccCCC
Confidence            99            89999999998644

>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=99.65  E-value=5.5e-16  Score=120.14  Aligned_cols=83  Identities=17%  Similarity=0.137  Sum_probs=77.7

Q ss_pred             CCcceEEEcCCCCCC-CHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          68 SSHCNLYVGNLTWWT-TEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~-~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....+|||+|||+.+ ++++|+++|+.||  .|..+.|+.+. +|.++|||||+|.+.++|.+|+..|||..|+|+.|.|
T Consensus       182 ~~~~~l~v~nlp~~~~~~~~l~~~f~~~G--~i~~v~i~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v  258 (284)
T 3smz_A          182 LHSRCLCVDRLPPGFNDVDALCRALSAVH--SPTFCQLACGQ-DGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRV  258 (284)
T ss_dssp             TSCSEEEEECCCTTCCCHHHHHHHTCSSS--CCSEEEEEECS-SCCEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCccEEEEecCCcccCCHHHHHHHhhCCC--CeEEEEEEECC-CCCcccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEE
Confidence            456789999999995 9999999999999  89999999988 8999999999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      .++++..
T Consensus       259 ~~a~~~~  265 (284)
T 3smz_A          259 SFCAPGP  265 (284)
T ss_dssp             EECCSSS
T ss_pred             EEecCCC
Confidence            9998754

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.65  E-value=6.6e-17  Score=116.67  Aligned_cols=83  Identities=24%  Similarity=0.324  Sum_probs=72.2

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|..||  .+.. .++.+..+|.++|||||+|.+.++|++|++ |||..+.|+.|.
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~g--~~~~-~~~~~~~~~~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~   84 (175)
T 1fje_B            9 ESTTPFNLFIGNLNPNKSVAELKVAISELF--AKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIK   84 (175)
T ss_dssp             SCSSSEEEEEECCCTTSCHHHHHHHHHHHH--HHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHHhC--Ccce-EEEEECCCCccccEEEEEECCHHHHHHHHh-cCCCEeCCeEEE
Confidence            345678999999999999999999999999  5554 334455578899999999999999999995 999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.++.+.
T Consensus        85 v~~~~~~   91 (175)
T 1fje_B           85 LEKPKGR   91 (175)
T ss_dssp             EECCCCS
T ss_pred             EecCCCc
Confidence            9999864

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

Probab=99.63  E-value=5e-16  Score=114.28  Aligned_cols=76  Identities=24%  Similarity=0.258  Sum_probs=71.2

Q ss_pred             cceEEEcCCCC-CCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          70 HCNLYVGNLTW-WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        70 ~~~v~V~nL~~-~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      +++|||+|||+ .+++++|+++|+.||  .|..++++.++     +|||||+|.+.++|++|++.|||..+.|+.|.|.+
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G--~i~~v~i~~~~-----~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~   75 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYG--DVQRVKILFNK-----KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITL   75 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTC--CCSEEECSTTC-----SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEE
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcC--CEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEE
Confidence            57999999999 999999999999999  89999998764     78999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      ++..
T Consensus        76 a~~~   79 (198)
T 1qm9_A           76 SKHQ   79 (198)
T ss_dssp             CCCC
T ss_pred             ecCC
Confidence            9864

>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=99.61  E-value=8.1e-15  Score=99.00  Aligned_cols=80  Identities=11%  Similarity=0.126  Sum_probs=68.0

Q ss_pred             CCcceEEEcCCCCCCC-----------HHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCC
Q psy8001          68 SSHCNLYVGNLTWWTT-----------EADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPT  136 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~-----------~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g  136 (172)
                      ....+|+|.||.....           +++|+++|++||  .|..+.| .++   .++|||||+|.+.++|++|++.|||
T Consensus        13 ~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G--~v~~v~i-~~~---~~~G~afV~f~~~~~A~~Ai~~lng   86 (112)
T 2dit_A           13 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFG--QIRKLLL-FDR---HPDGVASVSFRDPEEADYCIQTLDG   86 (112)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTS--CCSEEEE-ETT---CTTCEEEEECSCHHHHHHHHHHSTT
T ss_pred             CCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccC--CEeEEEE-ecC---CCCEEEEEEECCHHHHHHHHHHcCC
Confidence            3467899999944332           579999999999  8999955 554   3789999999999999999999999


Q ss_pred             ceeCCcccEEeccCCCC
Q psy8001         137 LELHGRKPMVAYPTRNV  153 (172)
Q Consensus       137 ~~l~g~~l~v~~a~~~~  153 (172)
                      ..|+|+.|+|.++.+..
T Consensus        87 ~~~~gr~l~v~~a~~~~  103 (112)
T 2dit_A           87 RWFGGRQITAQAWDGTT  103 (112)
T ss_dssp             CEETTEECEEEECCSCC
T ss_pred             CEECCcEEEEEEeCCCC
Confidence            99999999999997643

>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=99.61  E-value=4.6e-16  Score=103.98  Aligned_cols=72  Identities=14%  Similarity=0.180  Sum_probs=64.6

Q ss_pred             EcCCCCCCCHHHHHHHH------------HhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          75 VGNLTWWTTEADMSDAI------------RSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        75 V~nL~~~~~~~~l~~~f------------~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      +.||++.+++++|++.|            ++||  .|..+.|++++ +++++|||||+|.+.++|.+|++.|||..++||
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G--~V~~v~i~~~~-~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr   96 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYG--EVEEMNVCDNL-GDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQ   96 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--CEEEEEECCSS-SSSSEEEEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCC--ceEEEEEEeCC-CCCccEEEEEEECCHHHHHHHHHHHCCCEECCE
Confidence            56788888888777666            9999  99999999887 578899999999999999999999999999999


Q ss_pred             ccEEecc
Q psy8001         143 KPMVAYP  149 (172)
Q Consensus       143 ~l~v~~a  149 (172)
                      .|+|.++
T Consensus        97 ~i~v~~s  103 (104)
T 1jmt_A           97 PIHAELS  103 (104)
T ss_dssp             ECCEEEC
T ss_pred             EEEEEEc
Confidence            9999986

>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=99.60  E-value=3.8e-15  Score=114.52  Aligned_cols=78  Identities=26%  Similarity=0.358  Sum_probs=71.4

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .....++|||+|||+.+++++|+++|+.||  .|..+.+.+      .+|||||+|.+.++|..|+..|||..|.|+.|.
T Consensus        18 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G--~i~~v~i~~------~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~   89 (261)
T 3sde_A           18 TYTQRCRLFVGNLPTDITEEDFKRLFERYG--EPSEVFINR------DRGFGFIRLESRTLAEIAKAELDGTILKSRPLR   89 (261)
T ss_dssp             SSCGGGEEEEESCCTTCCHHHHHHHTGGGC--CCSEEEEET------TTTEEEEECSSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcC--CEEEEEEeC------CCcEEEEEECCHHHHHHHHHHcCCcEECCceeE
Confidence            345668999999999999999999999999  899998854      369999999999999999999999999999999


Q ss_pred             EeccCC
Q psy8001         146 VAYPTR  151 (172)
Q Consensus       146 v~~a~~  151 (172)
                      |.++.+
T Consensus        90 v~~a~~   95 (261)
T 3sde_A           90 IRFATH   95 (261)
T ss_dssp             EEECCC
T ss_pred             eeeccc
Confidence            999976

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=99.60  E-value=1.9e-15  Score=112.58  Aligned_cols=77  Identities=13%  Similarity=0.052  Sum_probs=67.5

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCe--EEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc----
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDF--IDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR----  142 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~--~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~----  142 (172)
                      +..+|||+|||+.+++++|+++|++||  .+  ..++++.++  +..+|||||+|.+.++|.+||..|||..|.|+    
T Consensus       122 p~~~l~v~NLp~~~t~~~L~~~F~~~G--~v~~~~v~~~~~~--~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~~~~  197 (205)
T 3tyt_A          122 PSNVLHFFNAPLEVTEENFFEICDELG--VKRPTSVKVFSGK--SERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPY  197 (205)
T ss_dssp             CCSEEEEEEECTTCCHHHHHHHHHHHT--CCCCSEEEECSCC--SSSSEEEEEECSSHHHHHHHHHHHTTCEECCSSSSS
T ss_pred             CcceEEEeCCCCCCCHHHHHHHHHhcC--CcceEEEEEEcCC--CCCceEEEEEeCCHHHHHHHHHHhCCCCccCCCCCc
Confidence            456899999999999999999999999  77  889988775  55679999999999999999999999999987    


Q ss_pred             ccEEecc
Q psy8001         143 KPMVAYP  149 (172)
Q Consensus       143 ~l~v~~a  149 (172)
                      .+.|++|
T Consensus       198 p~~vk~~  204 (205)
T 3tyt_A          198 PYTLKLC  204 (205)
T ss_dssp             CEECEEE
T ss_pred             ceEEEec
Confidence            4555543

>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=99.58  E-value=5.3e-15  Score=113.70  Aligned_cols=81  Identities=17%  Similarity=0.140  Sum_probs=73.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc-eeC---Ccc
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL-ELH---GRK  143 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~-~l~---g~~  143 (172)
                      ..+.+|||+|||+.+++++|+++|+.||  .|..+.|+.+. +|.++|||||+|.+.++|.+|+..||+. .+.   ++.
T Consensus        94 ~~~~~l~v~nl~~~~t~~~l~~~F~~~G--~i~~v~i~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~  170 (261)
T 3sde_A           94 THGAALTVKNLSPVVSNELLEQAFSQFG--PVEKAVVVVDD-RGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRP  170 (261)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEEET-TSCEEEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCB
T ss_pred             ccCCcccccCCCCCCCHHHHHHHHHhcC--CeEEEEeeeCC-CCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCce
Confidence            3467999999999999999999999999  99999999995 8999999999999999999999999554 444   999


Q ss_pred             cEEeccCC
Q psy8001         144 PMVAYPTR  151 (172)
Q Consensus       144 l~v~~a~~  151 (172)
                      |.|.++.+
T Consensus       171 i~v~~~~~  178 (261)
T 3sde_A          171 VIVEPMEQ  178 (261)
T ss_dssp             CEEEECCC
T ss_pred             EEEeeccc
Confidence            99999975

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

Probab=99.57  E-value=6.5e-16  Score=113.29  Aligned_cols=77  Identities=22%  Similarity=0.318  Sum_probs=64.7

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcC----CC-----CeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIG----VP-----DFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL  139 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g----~~-----~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l  139 (172)
                      ..++|||+|||+.+++++|+++|+.||    +.     .+..+.      .+.++|||||+|.+.++|++|+ .|||..|
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~------~~~~~g~afV~F~~~~~A~~Al-~l~g~~~   75 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQ------INQDKNFAFLEFRSVDETTQAM-AFDGIIF   75 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEE------EETTTTEEEEEESCSHHHHHHG-GGTTEEE
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeE------ecCCCCEEEEEeCCHHHHHHHH-HhcCCEE
Confidence            357999999999999999999999994    11     133333      3456899999999999999999 7999999


Q ss_pred             CCcccEEeccCCC
Q psy8001         140 HGRKPMVAYPTRN  152 (172)
Q Consensus       140 ~g~~l~v~~a~~~  152 (172)
                      .|+.|.|.+++..
T Consensus        76 ~g~~i~v~~~~~~   88 (198)
T 2yh0_A           76 QGQSLKIRRPHDY   88 (198)
T ss_dssp             TTEEEEEECCCCC
T ss_pred             cCceEEEeCCCCC
Confidence            9999999998764

>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=99.57  E-value=1.4e-14  Score=96.89  Aligned_cols=81  Identities=15%  Similarity=0.042  Sum_probs=69.3

Q ss_pred             CcceEEEcCC--CCCCC--------HHHHHHHHHhcCCCCeEEEEEEecCCC--CCcccEEEEEeCCHHHHHHHHHHCCC
Q psy8001          69 SHCNLYVGNL--TWWTT--------EADMSDAIRSIGVPDFIDVKFFENASN--GQSKGFCTVTLGSEESMSLVMERLPT  136 (172)
Q Consensus        69 ~~~~v~V~nL--~~~~~--------~~~l~~~f~~~g~~~~~~~~i~~~~~~--g~~~g~afv~f~~~~~a~~al~~l~g  136 (172)
                      +...|.+.|+  +....        +++|++.|++||  .|.++.|++++.+  +.++||+||+|.+.++|.+|++.|||
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G--~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG   81 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYG--LVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTG   81 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTS--CEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccC--CEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCC
Confidence            4567889987  33332        368999999999  9999999988754  36789999999999999999999999


Q ss_pred             ceeCCcccEEeccCC
Q psy8001         137 LELHGRKPMVAYPTR  151 (172)
Q Consensus       137 ~~l~g~~l~v~~a~~  151 (172)
                      ..++||.|+|.++..
T Consensus        82 ~~f~GR~i~v~~~~~   96 (105)
T 3v4m_A           82 RKFANRVVVTKYCDP   96 (105)
T ss_dssp             CEETTEECEEEEECH
T ss_pred             CEeCCCEEEEEEeCH
Confidence            999999999999853

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

Probab=99.56  E-value=8.6e-15  Score=107.62  Aligned_cols=79  Identities=19%  Similarity=0.263  Sum_probs=70.7

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC-CcccEE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH-GRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~-g~~l~v  146 (172)
                      .+..+|||+|||..+++++|+++|++||. .+..++++.+     .+|||||+|.+.++|.+|++.|||..++ |+.|+|
T Consensus       118 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~-~v~~v~i~~~-----~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v  191 (198)
T 1qm9_A          118 PPSATLHLSNIPPSVSEEDLKVLFSSNGG-VVKGFKFFQK-----DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRV  191 (198)
T ss_dssp             CCCCEEEECCCCTTCCHHHHHHHHHHTTS-CCCEEEESST-----TSSCEEEECSSHHHHHHHHHHHTSSCCSSCCSCCE
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHcCC-CceEEEEEeC-----CCcEEEEEeCCHHHHHHHHHHhcCCccCCCCeEEE
Confidence            45689999999999999999999999993 3778887654     3789999999999999999999999999 999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .+++++
T Consensus       192 ~~a~~~  197 (198)
T 1qm9_A          192 SFSKST  197 (198)
T ss_dssp             EEECCC
T ss_pred             Eeeccc
Confidence            999764

>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=99.56  E-value=1.1e-14  Score=113.13  Aligned_cols=82  Identities=11%  Similarity=0.105  Sum_probs=70.7

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      ......++|||+|||+.+++++|+++|+.||  .|..+.|+.++. + ++|||||+|.+.++|++|++ |||..+.|+.|
T Consensus        36 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~i~~v~i~~~~~-~-~~g~afV~f~~~~~A~~A~~-~~~~~~~g~~i  110 (292)
T 2ghp_A           36 TRNRELTTVLVKNLPKSYNQNKVYKYFKHCG--PIIHVDVADSLK-K-NFRFARIEFARYDGALAAIT-KTHKVVGQNEI  110 (292)
T ss_dssp             ------CEEEEEEECTTCCHHHHHHHHGGGS--CEEEEEEEECTT-S-SSEEEEEEESSHHHHHHHHT-TTTCEETTEEC
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeEEEEEEECCC-C-CcEEEEEEECCHHHHHHHHH-hCCcEeCCcEE
Confidence            3445678999999999999999999999999  999999999873 3 47999999999999999996 89999999999


Q ss_pred             EEeccCC
Q psy8001         145 MVAYPTR  151 (172)
Q Consensus       145 ~v~~a~~  151 (172)
                      .|.++..
T Consensus       111 ~v~~~~~  117 (292)
T 2ghp_A          111 IVSHLTE  117 (292)
T ss_dssp             EEEECCS
T ss_pred             EEEECCC
Confidence            9998864

>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=99.56  E-value=1.6e-14  Score=109.00  Aligned_cols=79  Identities=19%  Similarity=0.263  Sum_probs=70.8

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC-CcccEE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH-GRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~-g~~l~v  146 (172)
                      .+..+|||+|||+.+++++|+++|++||. .|..++++.+     .+|||||+|.+.++|.+|++.|||..+. |+.|+|
T Consensus       149 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~-~i~~v~i~~~-----~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v  222 (229)
T 2adc_A          149 PPSATLHLSNIPPSVSEEDLKVLFSSNGG-VVKGFKFFQK-----DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRV  222 (229)
T ss_dssp             CSCSEEEEECCCTTCCHHHHHHHHHTTSC-CEEEEEECSS-----STTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEE
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHHcCC-CeeEEEEEEC-----CCcEEEEEECCHHHHHHHHHHHCCCccCCCCeEEE
Confidence            34689999999999999999999999993 4788888653     3789999999999999999999999999 999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .|++++
T Consensus       223 ~~a~~~  228 (229)
T 2adc_A          223 SFSKST  228 (229)
T ss_dssp             EECSSC
T ss_pred             EEecCC
Confidence            999764

>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=99.53  E-value=5.8e-14  Score=100.63  Aligned_cols=77  Identities=25%  Similarity=0.394  Sum_probs=65.3

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhc----CCC-----CeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSI----GVP-----DFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL  139 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~----g~~-----~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l  139 (172)
                      +.++|||+|||+.+++++|+++|++|    |..     .+..+.+      +.++|||||+|.+.++|++|+ .|||..+
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~------~~~~g~afV~f~~~~~A~~A~-~~~~~~~   75 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQI------NQDKNFAFLEFRSVDETTQAM-AFDGIIF   75 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEE------ETTTTEEEEEESSHHHHHHHG-GGTTCEE
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEe------cCCCCEEEEEeCCHHHHHHHH-HhCCcEe
Confidence            45799999999999999999999999    521     2444444      345899999999999999999 7999999


Q ss_pred             CCcccEEeccCCC
Q psy8001         140 HGRKPMVAYPTRN  152 (172)
Q Consensus       140 ~g~~l~v~~a~~~  152 (172)
                      .|+.|.|.++...
T Consensus        76 ~g~~i~v~~~~~~   88 (172)
T 2g4b_A           76 QGQSLKIRRPHDY   88 (172)
T ss_dssp             TTEECEEECCSSC
T ss_pred             cCceeeecCCccc
Confidence            9999999998753

>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=99.52  E-value=4.2e-14  Score=96.47  Aligned_cols=81  Identities=11%  Similarity=0.097  Sum_probs=69.9

Q ss_pred             CcceEEEcCCCC--CC---CHHHHHHHHHhcCCCCeEEEEEEecCC----CCCcccEEEEEeCCHHHHHHHHHHCCCcee
Q psy8001          69 SHCNLYVGNLTW--WT---TEADMSDAIRSIGVPDFIDVKFFENAS----NGQSKGFCTVTLGSEESMSLVMERLPTLEL  139 (172)
Q Consensus        69 ~~~~v~V~nL~~--~~---~~~~l~~~f~~~g~~~~~~~~i~~~~~----~g~~~g~afv~f~~~~~a~~al~~l~g~~l  139 (172)
                      +...|++.|+-.  .+   -+++|++.|++||  .|..|.|+.++.    ++.++||+||+|.+.++|.+|++.|||..+
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G--~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f   96 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFG--AVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWF   96 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTS--CEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccC--CEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEE
Confidence            356899999832  22   2689999999999  999999999864    356789999999999999999999999999


Q ss_pred             CCcccEEeccCC
Q psy8001         140 HGRKPMVAYPTR  151 (172)
Q Consensus       140 ~g~~l~v~~a~~  151 (172)
                      +||.|+|.++..
T Consensus        97 ~GR~i~v~~~~~  108 (118)
T 3ue2_A           97 AGRKVVAEVYDQ  108 (118)
T ss_dssp             TTEECEEEEECH
T ss_pred             CCcEEEEEEcCh
Confidence            999999999853

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.50  E-value=4.2e-13  Score=88.84  Aligned_cols=65  Identities=8%  Similarity=0.123  Sum_probs=57.4

Q ss_pred             CCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccCCCC
Q psy8001          80 WWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRNV  153 (172)
Q Consensus        80 ~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~~~~  153 (172)
                      ..+++++|+++|++||  .|..|.|+     ++++|||||+|.+.++|+.|++.+++  +.|+.|+|+|++...
T Consensus        27 ~~~te~~L~~~F~~~G--~V~~v~i~-----~~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V~~a~~~~   91 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKYG--EVLNLVLS-----SKKPGTAVVEFATVKAAELAVQNEVG--LVDNPLKISWLEGQP   91 (100)
T ss_dssp             CSCCHHHHHHHHHTTS--CEEEEEEE-----SSSSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEEECSSCCC
T ss_pred             CCCCHHHHHHHHHhcC--CEEEEEEc-----cCCCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEEEEccCCC
Confidence            4689999999999999  89999987     35789999999999999999997554  689999999998653

>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=99.48  E-value=1.7e-13  Score=109.17  Aligned_cols=78  Identities=14%  Similarity=0.114  Sum_probs=66.0

Q ss_pred             CCCCcceEEEcC--CCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC---
Q psy8001          66 TSSSHCNLYVGN--LTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH---  140 (172)
Q Consensus        66 ~~~~~~~v~V~n--L~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~---  140 (172)
                      ...+..+|||||  |++.+++++|+++|++||  .|..|.+..      ++|||||+|.+.++|++||+.|||..+.   
T Consensus        14 ~~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G--~V~~v~~~~------~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~   85 (345)
T 3tht_A           14 VSYATQSLVVANGGLGNGVSRNQLLPVLEKCG--LVDALLMPP------NKPYSFARYRTTEESKRAYVTLNGKEVVDDL   85 (345)
T ss_dssp             CSSCCSEEEEETCSGGGTCCHHHHHHHHHTTS--CEEEEECCT------TCSEEEEEESSHHHHHHHHHHTTTCEEECTT
T ss_pred             cCCCCCEEEEEcCCCCCCCCHHHHHHHHHhcC--CeEEEEEeC------CCCEEEEEECCHHHHHHHHHHhCCCcccccc
Confidence            345567999999  578999999999999999  898877642      4799999999999999999999999883   


Q ss_pred             Cc--ccEEeccCC
Q psy8001         141 GR--KPMVAYPTR  151 (172)
Q Consensus       141 g~--~l~v~~a~~  151 (172)
                      |+  .|.|.++..
T Consensus        86 g~~~~ly~~~~~~   98 (345)
T 3tht_A           86 GQKITLYLNFVEK   98 (345)
T ss_dssp             SCEEECEEEECSS
T ss_pred             CCceEEEEEEeec
Confidence            45  578888753

>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=99.36  E-value=1.1e-12  Score=88.87  Aligned_cols=76  Identities=16%  Similarity=0.105  Sum_probs=63.1

Q ss_pred             cceEEEcCCCCCC----------CHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee
Q psy8001          70 HCNLYVGNLTWWT----------TEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL  139 (172)
Q Consensus        70 ~~~v~V~nL~~~~----------~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l  139 (172)
                      ...|.+.|+=...          -+++|++.|++||  .|..+.|.++.    .+||+||+|.+.++|.+|++.|||..+
T Consensus         7 s~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG--~V~~v~i~~~~----~~G~~fV~f~~~e~A~~Ai~~lnG~~f   80 (114)
T 3s6e_A            7 TQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHG--GVIHIYVDKNS----AQGNVYVKCPSIAAAIAAVNALHGRWF   80 (114)
T ss_dssp             CSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTT--CCSEEEECTTC----TTCCEEEECSSHHHHHHHHHHHTTCEE
T ss_pred             CcEEEEECCCChHHccChhHHHHHHHHHHHHHhccC--CEEEEEEecCC----CcEEEEEEECCHHHHHHHHHHhCCCEE
Confidence            4467777763211          1357899999999  89999886653    489999999999999999999999999


Q ss_pred             CCcccEEeccCC
Q psy8001         140 HGRKPMVAYPTR  151 (172)
Q Consensus       140 ~g~~l~v~~a~~  151 (172)
                      +||.|+|.++..
T Consensus        81 ~GR~i~v~~~~~   92 (114)
T 3s6e_A           81 AGKMITAAYVPL   92 (114)
T ss_dssp             TTEECEEEEECH
T ss_pred             CCEEEEEEEEcH
Confidence            999999999964

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.31  E-value=7.3e-12  Score=80.62  Aligned_cols=73  Identities=23%  Similarity=0.205  Sum_probs=61.6

Q ss_pred             CCcceEEEcCCC----CCCCH----HHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee
Q psy8001          68 SSHCNLYVGNLT----WWTTE----ADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL  139 (172)
Q Consensus        68 ~~~~~v~V~nL~----~~~~~----~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l  139 (172)
                      ++..+|+|.-.+    ..+..    .+|.+.|++||  .+..++++.++        +||+|.+.++|.+||+ |||..+
T Consensus         5 Ppd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G--~Vi~vr~~~d~--------~fVtF~d~~sAlaAi~-mnG~~v   73 (91)
T 2dnr_A            5 SSGGTVLVSIKSSLPENNFFDDALIDELLQQFASFG--EVILIRFVEDK--------MWVTFLEGSSALNVLS-LNGKEL   73 (91)
T ss_dssp             CSSCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTC--CEEEEEECSSS--------EEEEESSHHHHHHGGG-GTTCEE
T ss_pred             CCCCeEEEEeccCccccccCCHHHHHHHHHHHHhCC--CeEEEEEecCC--------EEEEECChHHHHHHHh-cCCeEe
Confidence            345678887765    23333    57899999999  89999998764        8999999999999998 999999


Q ss_pred             CCcccEEeccCC
Q psy8001         140 HGRKPMVAYPTR  151 (172)
Q Consensus       140 ~g~~l~v~~a~~  151 (172)
                      +||.|+|+++++
T Consensus        74 ~Gr~LkV~lkt~   85 (91)
T 2dnr_A           74 LNRTITIALKSP   85 (91)
T ss_dssp             TTEEEEEEECCC
T ss_pred             CCeEEEEEeCCC
Confidence            999999999875

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

Probab=99.23  E-value=4.1e-11  Score=81.59  Aligned_cols=80  Identities=11%  Similarity=0.031  Sum_probs=69.9

Q ss_pred             CCCCCCCcceEEEcCCCCC-CCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCC-HHHHHHHHHHCC--Cce
Q psy8001          63 SQATSSSHCNLYVGNLTWW-TTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGS-EESMSLVMERLP--TLE  138 (172)
Q Consensus        63 ~~~~~~~~~~v~V~nL~~~-~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~-~~~a~~al~~l~--g~~  138 (172)
                      ....-..++.|||+||++. ++.++|+++|++||  .|..|.++.+..      .|||.|.+ ..+|+.|++.||  +..
T Consensus        11 ~~~~~~~G~il~v~~l~~~~~sredLke~F~~~G--~V~~Vd~~~g~~------tgfVrf~~~~~~A~~av~~ln~~~~~   82 (121)
T 1owx_A           11 GSLEEKIGCLLKFSGDLDDQTCREDLHILFSNHG--EIKWIDFVRGAK------EGIILFKEKAKEALGKAKDANNGNLQ   82 (121)
T ss_dssp             CCCSCCCCCEEEEEESCCSSCCHHHHHHHTCSSC--CEEEEECCTTCS------EEEEEESSCHHHHHHHHHHTTTSCBC
T ss_pred             CcccccCCeEEEEecCCCCcCCHHHHHHHHHhcC--CEEEEEEecCCC------EEEEEECCChHHHHHHHHHhhcCCcE
Confidence            3355677899999999999 99999999999999  999999987653      59999999 899999999995  678


Q ss_pred             eCCcccEEeccC
Q psy8001         139 LHGRKPMVAYPT  150 (172)
Q Consensus       139 l~g~~l~v~~a~  150 (172)
                      |.|..+.++...
T Consensus        83 i~g~~~~~evL~   94 (121)
T 1owx_A           83 LRNKEVTWEVLE   94 (121)
T ss_dssp             TTSSSEEEEECC
T ss_pred             EeCcEEEEEECC
Confidence            999988887665

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.17  E-value=4.7e-11  Score=77.22  Aligned_cols=74  Identities=15%  Similarity=0.223  Sum_probs=61.9

Q ss_pred             CCCcceEEEcCCCCC-----CCH----HHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc
Q psy8001          67 SSSHCNLYVGNLTWW-----TTE----ADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL  137 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~-----~~~----~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~  137 (172)
                      .++..+|+|.-++..     +..    .+|.+.|.+||  .+..++++.|+        +||+|.+.++|.+||+ |||.
T Consensus        12 GPpD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G--~Vilvr~v~d~--------~fVtF~d~~sAl~AI~-ldG~   80 (95)
T 1ufw_A           12 GPLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYG--TIVLVRINQGQ--------MLVTFADSHSALSVLD-VDGM   80 (95)
T ss_dssp             CCTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHS--CCSEEEEETTE--------EEEECSCSHHHHHHHH-GGGS
T ss_pred             CCCCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCC--CEEEEEEecCc--------EEEEEcChHHHHHHHh-cCCe
Confidence            345668999887632     333    56889999999  88899998874        9999999999999999 9999


Q ss_pred             eeCCcccEEeccCC
Q psy8001         138 ELHGRKPMVAYPTR  151 (172)
Q Consensus       138 ~l~g~~l~v~~a~~  151 (172)
                      .++||.|+|++..+
T Consensus        81 ~v~Gr~L~V~~k~~   94 (95)
T 1ufw_A           81 KVKGRAVKISGPSS   94 (95)
T ss_dssp             EETTEEEEEECCCC
T ss_pred             eeCCeEEEEeccCC
Confidence            99999999997653

>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=99.08  E-value=3.5e-10  Score=84.65  Aligned_cols=66  Identities=12%  Similarity=0.133  Sum_probs=59.7

Q ss_pred             CHHHHHHHHHhcCCCCeEEEEEEecCC----CCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          83 TEADMSDAIRSIGVPDFIDVKFFENAS----NGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        83 ~~~~l~~~f~~~g~~~~~~~~i~~~~~----~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      .+++|++.|++||  .|..+.|+++..    ++.++|++||+|.+.++|.+|++.|||..++||.|.|.+..
T Consensus       142 ~~~dl~~e~~~~G--~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~  211 (222)
T 3dxb_A          142 LEGEVTEECGKFG--AVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD  211 (222)
T ss_dssp             HHHHHHHHHTTTS--CEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECC
T ss_pred             HHHHHHHHHHccC--CeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcC
Confidence            4678999999999  999999986543    44889999999999999999999999999999999999985

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.56  E-value=4.5e-07  Score=59.88  Aligned_cols=73  Identities=5%  Similarity=-0.017  Sum_probs=64.7

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhc-----CCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcc
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSI-----GVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRK  143 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~-----g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~  143 (172)
                      ...+|-+-|||..++.+-|+.++..+     |  .+..+.+..|-      +-|+|+|.+...|.+|.-.|+|.+|.||+
T Consensus        20 ~~rtiaL~~ipDtvndarIr~lve~~~~i~~g--~i~KI~L~pDH------~GAivef~d~~~AgKasLaL~G~ef~gr~   91 (117)
T 2l9w_A           20 LETLICLFPLSDKVSPSLICQFLQEEIHINEK--DIRKILLVSDF------NGAIIIFRDSKFAAKMLMILNGSQFQGKV   91 (117)
T ss_dssp             TTSCEEEECCCTTCCHHHHHHHHHHHTCCCTT--TCSEEEEETTT------TEEEEECSCHHHHHHHHHHHSSEEETTEE
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHhhhhccCcc--ceeEEEEecCC------CceEEEEccchhhHHHHhhcCCeeecCeE
Confidence            34678889999999999999999999     8  88898887663      68999999999999998889999999999


Q ss_pred             cEEecc
Q psy8001         144 PMVAYP  149 (172)
Q Consensus       144 l~v~~a  149 (172)
                      |+|.-.
T Consensus        92 Lr~gTv   97 (117)
T 2l9w_A           92 IRSGTI   97 (117)
T ss_dssp             EEEECH
T ss_pred             EEecCH
Confidence            998743

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=97.95  E-value=5.3e-05  Score=49.64  Aligned_cols=75  Identities=15%  Similarity=0.098  Sum_probs=60.5

Q ss_pred             cceEEEcCCCCCCC-H----HHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCccc
Q psy8001          70 HCNLYVGNLTWWTT-E----ADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        70 ~~~v~V~nL~~~~~-~----~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l  144 (172)
                      .++|+|.||+..+- .    +.++.+|..++  .........      +-.-..|.|.+.++|.+|...||+..+.|++|
T Consensus         5 pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~--~~~tF~~lk------SFRRirv~F~~~~~A~~AR~~Lh~~~f~g~~~   76 (104)
T 1wey_A            5 SSGLIACVANDDVFSESETRAKFESLFRTYD--KDTTFQYFK------SFKRVRINFSNPLSAADARLRLHKTEFLGKEM   76 (104)
T ss_dssp             CCEEEEECCCGGGGSTTTHHHHHHHHHHTTC--SSCEEEEET------TTTEEEEECSSTTHHHHHHHTSTTSEETTEEC
T ss_pred             CceEEEecCCHHHcCCHHHHHHHHHHHHhhC--cCcceeecC------cceEEEEEeCChHHHHHHHHHhccceecCcee
Confidence            35899999987552 2    56789999999  666655443      23356899999999999999999999999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      +|-++.+.
T Consensus        77 r~YFgq~~   84 (104)
T 1wey_A           77 KLYFAQTL   84 (104)
T ss_dssp             EEECCCCS
T ss_pred             EEEecCCC
Confidence            99999753

>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=97.73  E-value=0.00015  Score=46.50  Aligned_cols=70  Identities=11%  Similarity=0.181  Sum_probs=58.0

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCC--cccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQ--SKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~--~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      ++|-|++||+..+|+++.+.++.+.  .+.....+..+.+.+  ..+-|||.|.+.+++....+.++|..+.+.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~--~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D~   73 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMP--EHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDN   73 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCC--CEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECT
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcc--cceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEcC
Confidence            4789999999999999999999888  776666766654433  346799999999999999999999987653

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.54  E-value=0.0017  Score=42.28  Aligned_cols=75  Identities=15%  Similarity=0.059  Sum_probs=59.3

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHh----cCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRS----IGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~----~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      ...+.+|.|.|||..+.++.|.-+|+.    .|= .+..+....        +-|+|+|.+...|++.|+. ..+.|.|.
T Consensus         5 ~~~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG-~V~~v~~~~--------~~AvItF~d~~va~rVL~k-~~H~L~~~   74 (104)
T 2dhx_A            5 SSGGVAVEVRGLPPAVPDELLTLYFENRRRSGGG-PVLSWQRLG--------CGGVLTFREPADAERVLAQ-ADHELHGA   74 (104)
T ss_dssp             CCCCCEEEEESCCTTSCHHHHHHHHHCTTTTCCC-CEEEEEEET--------TEEEEEESSHHHHHHHHTC-SCCBSSSS
T ss_pred             ccCccEEEEECCCCCCChhHheEEEeCCCcCCCc-eeeEEEEcC--------CcEEEEEcChHHHHHHhcC-CcceecCe
Confidence            345679999999999999999999986    221 466665421        5789999999999999983 47899999


Q ss_pred             ccEEeccCC
Q psy8001         143 KPMVAYPTR  151 (172)
Q Consensus       143 ~l~v~~a~~  151 (172)
                      .|.|....+
T Consensus        75 ~LsV~P~~~   83 (104)
T 2dhx_A           75 QLSLRPAPP   83 (104)
T ss_dssp             BCEEEECCC
T ss_pred             EEEEEcCCC
Confidence            999987654

>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=97.02  E-value=0.0022  Score=41.36  Aligned_cols=53  Identities=15%  Similarity=0.269  Sum_probs=43.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL  134 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l  134 (172)
                      ..++| ++|..+.-.||.++|+.||  . ..|+++-|-       -|||.|.+.+.|..|+..+
T Consensus        17 HVf~l-~FP~ewKt~DI~~lFs~fg--g-v~I~WidDT-------sAlvvf~~~~~a~~al~~i   69 (100)
T 1whv_A           17 HVLHV-TFPKEWKTSDLYQLFSAFG--N-IQISWIDDT-------SAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             SEEEE-ECCTTCCHHHHHHHHTTTC--S-CCCEEEETT-------EEEEECSCHHHHHHHHHHH
T ss_pred             eEEEE-eCChhhhhHHHHHHhhccC--C-EEEEEEcCC-------eEEEEecCHHHHHHHHHhc
Confidence            34555 9999999999999999998  2 345566553       7999999999999999865

>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=96.89  E-value=0.01  Score=39.71  Aligned_cols=74  Identities=5%  Similarity=-0.084  Sum_probs=58.8

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC-cccE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG-RKPM  145 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g-~~l~  145 (172)
                      ....+-|.|-+++... -..+...|++||  .|.+...   .   ....+-.|.|.+..+|++||. .||..|.| -.|-
T Consensus        21 ~~~~~wVtVFGFp~~~-~~~VL~~F~~~G--~Iv~~~~---~---~~~NWihI~Y~s~~~A~rAL~-kNG~ii~g~~mIG   90 (119)
T 1wwh_A           21 HLDDTWVTVFGFPQAS-ASYILLQFAQYG--NILKHVM---S---NTGNWMHIRYQSKLQARKALS-KDGRIFGESIMIG   90 (119)
T ss_dssp             CGGGGEEEEECCCGGG-HHHHHHHHHTTS--CEEEEEE---C---SSSSEEEEEESSHHHHHHHHT-TTTCEETTTEECE
T ss_pred             CCCCCEEEEECCCHHH-HHHHHHHHHhhC--cEEEecc---C---CCCCeEEEEeCCHHHHHHHHH-hCCeEecCCEEEE
Confidence            3446789999999885 567888999999  7877664   1   123599999999999999998 59999985 6788


Q ss_pred             EeccC
Q psy8001         146 VAYPT  150 (172)
Q Consensus       146 v~~a~  150 (172)
                      |....
T Consensus        91 V~p~~   95 (119)
T 1wwh_A           91 VKPCI   95 (119)
T ss_dssp             EEECC
T ss_pred             EEECC
Confidence            88754

>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=96.79  E-value=0.0014  Score=45.68  Aligned_cols=35  Identities=17%  Similarity=0.112  Sum_probs=29.2

Q ss_pred             EEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc
Q psy8001         101 DVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL  137 (172)
Q Consensus       101 ~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~  137 (172)
                      .++|+++.  ..++|||||+|.+.++|++|++.+++.
T Consensus         2 ~~kl~ln~--~~~~G~~fV~f~~~~~A~~al~~~~~~   36 (158)
T 2kn4_A            2 QYKLILNG--KTLKGETTTEAVDAATAEKVFKQYAND   36 (158)
T ss_dssp             EEEEEEEC--SSCEEEEEEECSSHHHHHHHHHHHHHH
T ss_pred             cEEEEecC--ccccchhHHHHHHHHhHHHHHHhhccc
Confidence            46677774  368999999999999999999887754

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=96.66  E-value=0.0019  Score=41.75  Aligned_cols=71  Identities=10%  Similarity=0.097  Sum_probs=51.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCC--cccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQ--SKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~--~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      .-.|-|+.||+..||+++.+.++.+-  .+.....+..+.+.+  ...-|||.|.+.++.....+.++|..+.+.
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 SHMVVIRRLPPGLTKEQLEEQLRPLP--AHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLDS   81 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCS--SEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEECT
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcC--ccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEeC
Confidence            35799999999999998877766554  433222332222222  245799999999999999999999987653

>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=96.51  E-value=0.003  Score=40.85  Aligned_cols=53  Identities=15%  Similarity=0.240  Sum_probs=44.0

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCC
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP  135 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~  135 (172)
                      .++| ++|..+.-.||.++|+.||   -..|+++-|-       -|||.|.+.+.|..|+..+.
T Consensus         8 V~~l-~FP~ewKt~Di~~lFs~fg---gv~I~WidDT-------sAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            8 VLHV-TFPKEWKTSDLYQLFSAFG---NIQISWIDDT-------SAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEE-ECCTTCCHHHHHHHTTTSE---EEEEEEEETT-------EEEEEEEEECHHHHHHHHHT
T ss_pred             EEEE-eCChhhhhHHHHHHHhccC---CEEEEEEcCC-------eEEEEecCHHHHHHHHHhcc
Confidence            3455 9999999999999999999   4456666653       79999999999999998654

>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=96.40  E-value=0.0017  Score=44.99  Aligned_cols=40  Identities=15%  Similarity=0.071  Sum_probs=36.9

Q ss_pred             CCcccEEEEEeCCHHHHHHHHHHC-CCceeCCcccEEeccCC
Q psy8001         111 GQSKGFCTVTLGSEESMSLVMERL-PTLELHGRKPMVAYPTR  151 (172)
Q Consensus       111 g~~~g~afv~f~~~~~a~~al~~l-~g~~l~g~~l~v~~a~~  151 (172)
                      ...+|+++++|.+.++|++|++.| ||..++| .|.+.++..
T Consensus        10 ~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~   50 (150)
T 2i2y_A           10 KTLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATK   50 (150)
T ss_dssp             SSSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTT
T ss_pred             ccccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccC
Confidence            456899999999999999999999 9999999 999998875

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=95.74  E-value=0.02  Score=38.96  Aligned_cols=78  Identities=9%  Similarity=0.020  Sum_probs=55.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEE-EEEEe------------cCCCC-CcccEEEEEeCCHHHHHHHHHHCC
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFID-VKFFE------------NASNG-QSKGFCTVTLGSEESMSLVMERLP  135 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~-~~i~~------------~~~~g-~~~g~afv~f~~~~~a~~al~~l~  135 (172)
                      ...|.|-+.|.... ..+-+.|++||  .|.+ ..+..            .+..+ ....+-.|.|.+..+|.+||. .|
T Consensus         7 e~~VtVFGFp~~~~-~~VI~~Fs~~G--~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~-~N   82 (132)
T 3p3d_A            7 ELAILVFGYPETMA-NQVIAYFQEFG--TILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALL-EN   82 (132)
T ss_dssp             -CEEEEECCCGGGH-HHHHHHHGGGS--CBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHT-TT
T ss_pred             ceEEEEEecCHHHH-HHHHHHHHhhc--eEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHH-hC
Confidence            45788889977665 45678899999  6654 21110            00011 134688999999999999998 59


Q ss_pred             CceeCCcccEEeccCC
Q psy8001         136 TLELHGRKPMVAYPTR  151 (172)
Q Consensus       136 g~~l~g~~l~v~~a~~  151 (172)
                      |..|.|..|-|....+
T Consensus        83 G~ii~G~mIGV~Py~~   98 (132)
T 3p3d_A           83 GAVFNGVLLGVIPYTK   98 (132)
T ss_dssp             TCEETTEECEEEECCH
T ss_pred             CeEeCcEEEEEEECCH
Confidence            9999999999988864

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.66  E-value=0.0069  Score=49.84  Aligned_cols=55  Identities=15%  Similarity=0.216  Sum_probs=40.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHH
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME  132 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~  132 (172)
                      .+.|+|. .+..+++.+|.++|++||  .|..+.+..+  .|   -|+.|+|.+.+++..++.
T Consensus        53 ~rsv~v~-~~~~~~~~~l~~y~~~~g--~i~~~~~~~~--~g---~~~~vef~~~~~~~~~~~  107 (464)
T 3pq1_A           53 QRTVLIH-CPEKISENKFLKYLSQFG--PINNHFFYES--FG---LYAVVEFCQKESIGSLQN  107 (464)
T ss_dssp             HTEEEEE-ECCC---CHHHHHHGGGS--CCCCEEEECS--SS---EEEEEECC---CCHHHHS
T ss_pred             cceEEEE-cCCCCCHHHHHHHHHhcC--CcceEEEEcc--CC---eEEEEEeCCHHHHHHHHh
Confidence            4689997 799999999999999999  8998876543  33   599999999999887765

>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=86.68  E-value=1.8  Score=35.88  Aligned_cols=54  Identities=15%  Similarity=0.240  Sum_probs=43.1

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP  135 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~  135 (172)
                      ..++|+ ++..|...+|.++|+.||  . ..|+++.+       ..|||.|.+.+.|..+++.++
T Consensus       441 ~vl~v~-f~~~~~~~~i~~~fs~fg--~-v~V~widd-------t~a~V~~~~~~~a~~~l~~~~  494 (507)
T 3d45_A          441 HVLHVT-FPKEWKTSDLYQLFSAFG--N-IQISWIDD-------TSAFVSLSQPEQVQIAVNTSK  494 (507)
T ss_dssp             GEEEEE-CCTTCCHHHHHHHGGGGC--C-CEEEECSS-------SEEEEECSCHHHHHHHHHHHT
T ss_pred             cEEEEe-CCCCCCHHHHHHHHHhcC--C-EEEEEEcC-------CeEEEEECCHHHHHHHHHHHH
Confidence            355565 888999999999999999  3 34555443       279999999999999999875

---

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	172
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	4e-10
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	8e-10
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	2e-09
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	3e-08
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	3e-08
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	4e-08
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	4e-08
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	6e-08
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	3e-07
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	3e-07
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	4e-07
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	4e-07
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	4e-07
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	4e-07
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	4e-07
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	5e-07
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	5e-07
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	6e-07
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	6e-07
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	1e-06
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	2e-06
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	2e-06
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	2e-06
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	2e-06
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	2e-06
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	2e-06
d1fjeb1	91	d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesoc	4e-06
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	4e-06
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	4e-06
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	4e-06
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	5e-06
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	6e-06
d2cpya1	103	d.58.7.1 (A:536-638) RNA-binding protein 12 {Human	1e-05
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	1e-05
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-05
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	1e-05
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	1e-05
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	2e-05
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	2e-05
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	3e-05
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	2e-04
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	3e-05
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	5e-05
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	5e-05
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	6e-05
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	6e-05
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	7e-05
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	8e-05
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	8e-05
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	9e-05
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	9e-05
d1wg4a_	98	d.58.7.1 (A:) Splicing factor, arginine/serine-ric	9e-05
d1x5oa1	101	d.58.7.1 (A:8-108) RNA-binding motif, single-stran	1e-04
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	2e-04
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	2e-04
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	2e-04
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	4e-04
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	5e-04
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	0.001
d2bz2a1	79	d.58.7.1 (A:35-113) Negative elongation factor E,	0.002
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	0.002
d3begb1	87	d.58.7.1 (B:121-207) Splicing factor, arginine/ser	0.003
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	0.003

>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 = 52.0 bits (124), Expect = 4e-10
 Identities = 13/80 (16%), Positives = 33/80 (41%), Gaps = 2/80 (2%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
           C L++G +       ++ + I  +       + +   A   +++GF  V   S  + ++ 
Sbjct: 2   CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMA 61

Query: 131 MERL--PTLELHGRKPMVAY 148
             +L    ++L G +  V +
Sbjct: 62  RRKLMPGRIQLWGHQIAVDW 81

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.7 bits (121), Expect = 8e-10
 Identities = 14/81 (17%), Positives = 32/81 (39%), Gaps = 2/81 (2%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           +LYVG+L    TEA + +     G    + ++   +    +S G+  V           +
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSPAG--PILSIRVCRDMITRRSLGYAYVNFQQPADAERAL 59

Query: 132 ERLPTLELHGRKPMVAYPTRN 152
           + +    + G+   + +  R+
Sbjct: 60  DTMNFDVIKGKPVRIMWSQRD 80

>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 = 49.6 bits (118), Expect = 2e-09
 Identities = 18/80 (22%), Positives = 36/80 (45%), Gaps = 5/80 (6%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
           C +++G L+W TT+  + +     G  +  +     +    +S+GF  VT   +  +  V
Sbjct: 1   CKMFIGGLSWQTTQEGLREYFGQFG--EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV 58

Query: 131 MERLPTLELHGRK--PMVAY 148
           + +    EL  +   P VA+
Sbjct: 59  LAQSRH-ELDSKTIDPKVAF 77

>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 = 47.2 bits (112), Expect = 3e-08
 Identities = 13/91 (14%), Positives = 35/91 (38%), Gaps = 2/91 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
             +   + V N+ +   + ++ +   + G    + +      + G  +GF  V   +++ 
Sbjct: 5   KQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGT-GAHRGFGFVDFITKQD 63

Query: 127 MSLVMERLP-TLELHGRKPMVAYPTRNVLYQ 156
                  L  +  L+GR+ ++ +    V  Q
Sbjct: 64  AKKAFNALCHSTHLYGRRLVLEWADSEVTVQ 94

>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 = 46.6 bits (110), Expect = 3e-08
 Identities = 14/78 (17%), Positives = 24/78 (30%), Gaps = 2/78 (2%)

Query: 66  TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEE 125
            S    NLYV  L    T+ ++       G    I  +   +   G S+G   +      
Sbjct: 2   ASIRDANLYVSGLPKTMTQKELEQLFSQYG--RIITSRILVDQVTGVSRGVGFIRFDKRI 59

Query: 126 SMSLVMERLPTLELHGRK 143
                ++ L   +  G  
Sbjct: 60  EAEEAIKGLNGQKPSGAT 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 = 47.3 bits (112), Expect = 4e-08
 Identities = 14/76 (18%), Positives = 26/76 (34%), Gaps = 5/76 (6%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LY+ NL +  T  +M D     G      ++     +  +++G   V            +
Sbjct: 10  LYIRNLPYKITAEEMYDIFGKYG-----PIRQIRVGNTPETRGTAYVVYEDIFDAKNACD 64

Query: 133 RLPTLELHGRKPMVAY 148
            L    +  R  +V Y
Sbjct: 65  HLSGFNVCNRYLVVLY 80

>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 = 46.2 bits (109), Expect = 4e-08
 Identities = 18/77 (23%), Positives = 28/77 (36%), Gaps = 1/77 (1%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIG-VPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           L++ NL + TTE  +      +G +      K    A    S GF  V     E     +
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 60

Query: 132 ERLPTLELHGRKPMVAY 148
           ++L    + G K  V  
Sbjct: 61  KQLQGHTVDGHKLEVRI 77

>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 = 45.8 bits (108), Expect = 6e-08
 Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 2/80 (2%)

Query: 69  SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMS 128
           S+ NL V  L    T+ ++    R+IG       +   +   G S G+  V   SE    
Sbjct: 1   SNTNLIVNYLPQDMTDRELYALFRAIG--PINTCRIMRDYKTGYSYGYAFVDFTSEMDSQ 58

Query: 129 LVMERLPTLELHGRKPMVAY 148
             ++ L  + +  ++  V+Y
Sbjct: 59  RAIKVLNGITVRNKRLKVSY 78

>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 = 44.7 bits (105), Expect = 3e-07
 Identities = 14/86 (16%), Positives = 31/86 (36%), Gaps = 2/86 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           SQ       NL++ +L     + D+          + +  K F +     SK F  V+  
Sbjct: 11  SQKEGPEGANLFIYHLPQEFGDQDLLQMFMPF--GNVVSAKVFIDKQTNLSKCFGFVSYD 68

Query: 123 SEESMSLVMERLPTLELHGRKPMVAY 148
           +  S    ++ +   ++  ++  V  
Sbjct: 69  NPVSAQAAIQSMNGFQIGMKRLKVQL 94

>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 = 43.8 bits (103), Expect = 3e-07
 Identities = 16/87 (18%), Positives = 30/87 (34%), Gaps = 8/87 (9%)

Query: 66  TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEE 125
           T +    L+VGNL    TE +M       G    + +   +         F  + L +  
Sbjct: 4   TFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG--------FGFIRLETRT 55

Query: 126 SMSLVMERLPTLELHGRKPMVAYPTRN 152
              +    L  + L G++  V +   +
Sbjct: 56  LAEIAKVELDNMPLRGKQLRVRFACHS 82

>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 = 43.9 bits (103), Expect = 4e-07
 Identities = 13/81 (16%), Positives = 25/81 (30%), Gaps = 5/81 (6%)

Query: 68  SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESM 127
           ++ C +YVGNL       D+ D     G      ++  +  +      F  V        
Sbjct: 12  NNDCRIYVGNLPPDIRTKDIEDVFYKYG-----AIRDIDLKNRRGGPPFAFVEFEDPRDA 66

Query: 128 SLVMERLPTLELHGRKPMVAY 148
              +      +  G +  V +
Sbjct: 67  EDAVYGRDGYDYDGYRLRVEF 87

>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 = 43.9 bits (103), Expect = 4e-07
 Identities = 12/76 (15%), Positives = 29/76 (38%), Gaps = 2/76 (2%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           L++G L  +  +  + + + S            ++++ G SKG+              + 
Sbjct: 4   LFIGGLPNYLNDDQVKELLTSF--GPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61

Query: 133 RLPTLELHGRKPMVAY 148
            L  ++L  +K +V  
Sbjct: 62  GLNGMQLGDKKLLVQR 77

>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 = 43.8 bits (103), Expect = 4e-07
 Identities = 20/78 (25%), Positives = 30/78 (38%), Gaps = 2/78 (2%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
           C LYVGNL+++TTE  + +     G  D   +    +     + GFC V   S       
Sbjct: 8   CTLYVGNLSFYTTEEQIYELFSKSG--DIKKIIMGLDKMKKTACGFCFVEYYSRADAENA 65

Query: 131 MERLPTLELHGRKPMVAY 148
           M  +    L  R     +
Sbjct: 66  MRYINGTRLDDRIIRTDW 83

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.5 bits (102), Expect = 4e-07
 Identities = 22/81 (27%), Positives = 37/81 (45%), Gaps = 2/81 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           ++A    +C L V  L+ +TTE D+ +     G     DV    +  + +S+GF  V   
Sbjct: 2   NRANPDPNCCLGVFGLSLYTTERDLREVFSKYG--PIADVSIVYDQQSRRSRGFAFVYFE 59

Query: 123 SEESMSLVMERLPTLELHGRK 143
           + +      ER   +EL GR+
Sbjct: 60  NVDDAKEAKERANGMELDGRR 80

>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 = 43.8 bits (103), Expect = 4e-07
 Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 4/80 (5%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           +L V  L W TTE D+ +   +    + + V+  ++   G SKGF  V     E+   VM
Sbjct: 10  DLIVLGLPWKTTEQDLKEYFSTF--GEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVM 67

Query: 132 ERLPTLELHGRKPMVAYPTR 151
            +     + GR      P  
Sbjct: 68  SQRH--MIDGRWCDCKLPNS 85

>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 = 43.9 bits (103), Expect = 5e-07
 Identities = 19/85 (22%), Positives = 33/85 (38%), Gaps = 2/85 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           SS    L+V NL++ ++E D+     + G     ++ +  ++   + KGF  VT    E 
Sbjct: 5   SSGSGRLFVRNLSYTSSEEDLEKLFSAYG--PLSELHYPIDSLTKKPKGFAFVTFMFPEH 62

Query: 127 MSLVMERLPTLELHGRKPMVAYPTR 151
                  +      GR   V   T 
Sbjct: 63  AVKAYAEVDGQVFQGRMLHVLPSTI 87

>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 = 43.5 bits (102), Expect = 5e-07
 Identities = 16/86 (18%), Positives = 36/86 (41%), Gaps = 2/86 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
            +    +YVG L    +E  + +     G    ++    ++   GQ +G+  V   SEE 
Sbjct: 6   RNQDATVYVGGLDEKVSEPLLWELFLQAG--PVVNTHMPKDRVTGQHQGYGFVEFLSEED 63

Query: 127 MSLVMERLPTLELHGRKPMVAYPTRN 152
               ++ +  ++L+G+   V   + +
Sbjct: 64  ADYAIKIMDMIKLYGKPIRVNKASAH 89

>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 = 6e-07
 Identities = 15/95 (15%), Positives = 31/95 (32%), Gaps = 9/95 (9%)

Query: 54  RHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQS 113
           +  R+    +Q +S  +C +Y G +    T+  M       G    I V   +       
Sbjct: 3   KQLRFEDVVNQ-SSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKG------ 55

Query: 114 KGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY 148
             +  V   + ES +  +  +    + G      +
Sbjct: 56  --YSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYW 88

>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 = 43.5 bits (102), Expect = 6e-07
 Identities = 19/81 (23%), Positives = 33/81 (40%), Gaps = 4/81 (4%)

Query: 68  SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESM 127
           S   N+++ NL        + D   + G      V   EN     SKG+  V   ++E+ 
Sbjct: 6   SGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN----GSKGYGFVHFETQEAA 61

Query: 128 SLVMERLPTLELHGRKPMVAY 148
              +E++  + L+ RK  V  
Sbjct: 62  ERAIEKMNGMLLNDRKVFVGR 82

>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 = 42.3 bits (99), Expect = 1e-06
 Identities = 18/82 (21%), Positives = 32/82 (39%), Gaps = 2/82 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           +++   LYVG L     +  +  A    G  D  D++   +    + +GF  V     E 
Sbjct: 2   ATTKRVLYVGGLAEEVDDKVLHAAFIPFG--DITDIQIPLDYETEKHRGFAFVEFELAED 59

Query: 127 MSLVMERLPTLELHGRKPMVAY 148
            +  ++ +   EL GR   V  
Sbjct: 60  AAAAIDNMNESELFGRTIRVNL 81

>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 = 42.2 bits (99), Expect = 2e-06
 Identities = 15/77 (19%), Positives = 23/77 (29%), Gaps = 2/77 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           S    NLYV NL    T+  +       G    +      +   G+ +G   V     E 
Sbjct: 3   SIKDTNLYVTNLPRTITDDQLDTIFGKYG--SIVQKNILRDKLTGRPRGVAFVRYNKREE 60

Query: 127 MSLVMERLPTLELHGRK 143
               +  L  +   G  
Sbjct: 61  AQEAISALNNVIPEGGS 77

>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 = 41.9 bits (98), Expect = 2e-06
 Identities = 15/71 (21%), Positives = 31/71 (43%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           ++VG L+  T E  + +     G  +   ++   +    + +GFC +T   EE +  +ME
Sbjct: 2   IFVGGLSPDTPEEKIREYFGGFG--EVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME 59

Query: 133 RLPTLELHGRK 143
           +     +   K
Sbjct: 60  KKYH-NVGLSK 69

>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 = 41.8 bits (98), Expect = 2e-06
 Identities = 14/78 (17%), Positives = 27/78 (34%), Gaps = 3/78 (3%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           L V NL +  ++AD+ +     G      V +  +  +        V    +      M+
Sbjct: 3   LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLG---TADVHFERKADALKAMK 59

Query: 133 RLPTLELHGRKPMVAYPT 150
           +   + L GR   +   T
Sbjct: 60  QYNGVPLDGRPMNIQLVT 77

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 2e-06
 Identities = 16/71 (22%), Positives = 30/71 (42%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           L++G L++ TT+  +             D     + +  +S+GF  VT  + E +   M 
Sbjct: 9   LFIGGLSFETTDESLRSHFEQW--GTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66

Query: 133 RLPTLELHGRK 143
             P  ++ GR 
Sbjct: 67  ARPH-KVDGRV 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 = 41.3 bits (96), Expect = 2e-06
 Identities = 14/78 (17%), Positives = 31/78 (39%), Gaps = 2/78 (2%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
           C L++ N     T+ ++ D ++ I            +     S+ F  + + S+E     
Sbjct: 2   CTLWMTNFPPSYTQRNIRDLLQDIN--VVALSIRLPSLRFNTSRRFAYIDVTSKEDARYC 59

Query: 131 MERLPTLELHGRKPMVAY 148
           +E+L  L++ G   +   
Sbjct: 60  VEKLNGLKIEGYTLVTKV 77

>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 = 41.6 bits (97), Expect = 2e-06
 Identities = 10/81 (12%), Positives = 23/81 (28%), Gaps = 2/81 (2%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           + +       + V N+ +  +  ++ D                +    G   G   V   
Sbjct: 2   ASSGKPGPTIIKVQNMPFTVSIDEILDFFYGY--QVIPGSVCLKYNEKGMPTGEAMVAFE 59

Query: 123 SEESMSLVMERLPTLELHGRK 143
           S +  +  +  L    +  RK
Sbjct: 60  SRDEATAAVIDLNDRPIGSRK 80

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 41.5 bits (96), Expect = 4e-06
 Identities = 19/90 (21%), Positives = 38/90 (42%), Gaps = 4/90 (4%)

Query: 59  SHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCT 118
           SH    + S++  NL++GNL    + A++  AI  +      +     +   G ++ F  
Sbjct: 2   SHMVEGSESTTPFNLFIGNLNPNKSVAELKVAISELFA---KNDLAVVDVRTGTNRKFGY 58

Query: 119 VTLGSEESMSLVMERLPTLELHGRKPMVAY 148
           V   S E +   +  L  L++ G +  +  
Sbjct: 59  VDFESAEDLEKAL-ELTGLKVFGNEIKLEK 87

>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 = 41.3 bits (96), Expect = 4e-06
 Identities = 17/92 (18%), Positives = 32/92 (34%), Gaps = 6/92 (6%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIG------VPDFIDVKFFENASNGQSKGFCTVT 120
            S +  +YV  L    T  D++D  +  G            +  + +   G+ KG  TV+
Sbjct: 5   DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVS 64

Query: 121 LGSEESMSLVMERLPTLELHGRKPMVAYPTRN 152
                +    +E     +  G K  V+   + 
Sbjct: 65  YEDPPTAKAAVEWFDGKDFQGSKLKVSLARKK 96

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 4e-06
 Identities = 17/82 (20%), Positives = 32/82 (39%), Gaps = 2/82 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           +S    L+VG L++ T E  +             +V   ++    +S+GF  VT  + + 
Sbjct: 2   ASDEGKLFVGGLSFDTNEQSLEQVFSKY--GQISEVVVVKDRETQRSRGFGFVTFENIDD 59

Query: 127 MSLVMERLPTLELHGRKPMVAY 148
               M  +    + GR+  V  
Sbjct: 60  AKDAMMAMNGKSVDGRQIRVDQ 81

>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 = 41.2 bits (96), Expect = 4e-06
 Identities = 17/81 (20%), Positives = 31/81 (38%), Gaps = 3/81 (3%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
            +        L++G L++ TTE  + +     G           + ++ +S+GF  VT  
Sbjct: 13  KKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDC--VVMRDPASKRSRGFGFVTFS 70

Query: 123 SEESMSLVMERLPTLELHGRK 143
           S   +   M   P   + GR 
Sbjct: 71  SMAEVDAAMAARPH-SIDGRV 90

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 5e-06
 Identities = 16/80 (20%), Positives = 26/80 (32%), Gaps = 4/80 (5%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDV---KFFENASNGQSKGFCTVTLGSEESMSL 129
           LYVGN+ +  TE  M D   +      +              Q K F  +   S +  + 
Sbjct: 4   LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQ 63

Query: 130 VMERLPTLELHGRKPMVAYP 149
            M     +   G+   +  P
Sbjct: 64  AM-AFDGIIFQGQSLKIRRP 82

>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 = 40.5 bits (94), Expect = 6e-06
 Identities = 20/80 (25%), Positives = 29/80 (36%), Gaps = 2/80 (2%)

Query: 69  SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMS 128
           S  NL V  L    T+ +      SIG  +    K   +   GQS G+  V     +   
Sbjct: 1   SKTNLIVNYLPQNMTQEEFRSLFGSIG--EIESCKLVRDKITGQSLGYGFVNYIDPKDAE 58

Query: 129 LVMERLPTLELHGRKPMVAY 148
             +  L  L L  +   V+Y
Sbjct: 59  KAINTLNGLRLQTKTIKVSY 78

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.2 bits (93), Expect = 1e-05
 Identities = 21/101 (20%), Positives = 41/101 (40%), Gaps = 3/101 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           +S+    ++ N+ +  T+ D+   +  I V +          +NGQ  G   V   +E+ 
Sbjct: 5   NSAKVCAHITNIPFSITKMDVLQFLEGIPVDEN--AVHVLVDNNGQGLGQALVQFKNEDD 62

Query: 127 MSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRS 167
                  L   +L+GR+  V   T   + + E   P + +S
Sbjct: 63  ARKSER-LHRKKLNGREAFVHVVTLEDMREIEKNPPAQGKS 102

>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 = 40.1 bits (93), Expect = 1e-05
 Identities = 16/82 (19%), Positives = 29/82 (35%), Gaps = 2/82 (2%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           S     L+V ++     E ++ +     G    I +        G SKG+  V   + + 
Sbjct: 4   SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRR--TGFSKGYALVEYETHKQ 61

Query: 127 MSLVMERLPTLELHGRKPMVAY 148
                E L   E+ G+   V +
Sbjct: 62  ALAAKEALNGAEIMGQTIQVDW 83

>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 = 39.6 bits (92), Expect = 1e-05
 Identities = 19/71 (26%), Positives = 36/71 (50%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           +++G L+W TT+ D+ D        + +D     +   G+S+GF  V     ES+  VM+
Sbjct: 2   MFIGGLSWDTTKKDLKDYFSKF--GEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD 59

Query: 133 RLPTLELHGRK 143
           +    +L+G+ 
Sbjct: 60  QKEH-KLNGKV 69

>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 = 39.6 bits (92), Expect = 1e-05
 Identities = 9/78 (11%), Positives = 28/78 (35%), Gaps = 1/78 (1%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
             +Y+ NL     + ++  ++ +I    F  +     + + + +G   V      S +  
Sbjct: 4   HTIYINNLNEKIKKDELKKSLHAIFSR-FGQILDILVSRSLKMRGQAFVIFKEVSSATNA 62

Query: 131 MERLPTLELHGRKPMVAY 148
           +  +     + +   + Y
Sbjct: 63  LRSMQGFPFYDKPMRIQY 80

>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 = 39.3 bits (91), Expect = 1e-05
 Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 1/79 (1%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           +++GNL     E  + D   + GV      K   +   G SKG+  +   S ++    +E
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTP-KIMRDPDTGNSKGYAFINFASFDASDAAIE 59

Query: 133 RLPTLELHGRKPMVAYPTR 151
            +    L  R   V+Y  +
Sbjct: 60  AMNGQYLCNRPITVSYAFK 78

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.9 bits (90), Expect = 2e-05
 Identities = 19/77 (24%), Positives = 28/77 (36%), Gaps = 9/77 (11%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LY+GNL+   T  D+        +P    V            G+  V    +      +E
Sbjct: 4   LYIGNLSPAVTADDLRQLFGDRKLPLAGQV--------LLKSGYAFVDYPDQNWAIRAIE 55

Query: 133 RL-PTLELHGRKPMVAY 148
            L   +ELHG+   V Y
Sbjct: 56  TLSGKVELHGKIMEVDY 72

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.3 bits (91), Expect = 2e-05
 Identities = 21/109 (19%), Positives = 39/109 (35%), Gaps = 13/109 (11%)

Query: 62  HSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTL 121
           H     ++   ++VG L + TT+A +       G  +   V        G+S+G+  VT+
Sbjct: 2   HGSQKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQ--TGKSRGYGFVTM 59

Query: 122 GSEESMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRS 170
               +     +      + GRK  V            A    + RS ++
Sbjct: 60  ADRAAAERACKDPNP-IIDGRKANVNL----------AYLGAKPRSLQT 97

>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 = 40.4 bits (93), Expect = 3e-05
 Identities = 22/141 (15%), Positives = 46/141 (32%), Gaps = 4/141 (2%)

Query: 8   ILGMGPTDTNTSPGEHVSTEHDDIDLYDDVTLQPFPEHTGRSPARYRHHRYSHHHSQATS 67
            + M   +T  S G    T     ++   +  +P          +    R       A  
Sbjct: 36  CVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVSREDSQRPGAHL 95

Query: 68  SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESM 127
           +    ++VG +   T E  + D     G      ++   +  +G+ +GF  VT    +S+
Sbjct: 96  T-VKKIFVGGIKEDTEEHHLRDYFEQYG--KIEVIEIMTDRGSGKKRGFAFVTFDDHDSV 152

Query: 128 SLVMERLPTLELHGRKPMVAY 148
             ++       ++G    V  
Sbjct: 153 DKIVI-QKYHTVNGHNCEVRK 172

>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 = 38.1 bits (87), Expect = 2e-04
 Identities = 17/92 (18%), Positives = 33/92 (35%), Gaps = 2/92 (2%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           L++G L++ TT+  +       G     D     + +  +S+GF  VT  + E +   M 
Sbjct: 9   LFIGGLSFETTDESLRSHFEQWG--TLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66

Query: 133 RLPTLELHGRKPMVAYPTRNVLYQFEAQNPLR 164
             P              +R    +  A   ++
Sbjct: 67  ARPHKVDGRVVEPKRAVSREDSQRPGAHLTVK 98

>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 = 38.5 bits (89), Expect = 3e-05
 Identities = 16/82 (19%), Positives = 30/82 (36%), Gaps = 9/82 (10%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           SS    ++VG  T   TE ++ +     G  D +DV   +       + F  VT   ++ 
Sbjct: 2   SSGSSGVFVGRCTGDMTEDELREFFSQYG--DVMDVFIPK-----PFRAFAFVTFADDQI 54

Query: 127 MSLVMERLPTLELHGRKPMVAY 148
              +      L + G    ++ 
Sbjct: 55  AQSLCGED--LIIKGISVHISN 74

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.2 bits (88), Expect = 5e-05
 Identities = 13/82 (15%), Positives = 27/82 (32%), Gaps = 9/82 (10%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           SS    + V NL   +   ++ D ++             +     ++K    VTL + E 
Sbjct: 2   SSGSSGILVKNLPQDSNCQEVHDLLKDYD---------LKYCYVDRNKRTAFVTLLNGEQ 52

Query: 127 MSLVMERLPTLELHGRKPMVAY 148
               ++        G+  +V  
Sbjct: 53  AQNAIQMFHQYSFRGKDLIVQL 74

>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 = 37.8 bits (87), Expect = 5e-05
 Identities = 18/71 (25%), Positives = 32/71 (45%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           ++VG L+  TT  D+       G  D   + F +     + +GF  VT  SE+ +  V E
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKT--TNRHRGFGFVTFESEDIVEKVCE 59

Query: 133 RLPTLELHGRK 143
            +   E++ + 
Sbjct: 60  -IHFHEINNKM 69

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 6e-05
 Identities = 21/107 (19%), Positives = 39/107 (36%), Gaps = 10/107 (9%)

Query: 48  RSPARYRHHRYSHHHSQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFEN 107
           +SP R      S     A +     ++   L       D+ D   ++      DV+   +
Sbjct: 1   KSPVREPVDNLSPEERDART-----VFCMQLAARIRPRDLEDFFSAV--GKVRDVRIISD 53

Query: 108 ASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV--AYPTRN 152
            ++ +SKG   V     +S+ L +  L    L G   +V  +   +N
Sbjct: 54  RNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIVQASQAEKN 99

>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 = 37.7 bits (87), Expect = 6e-05
 Identities = 18/86 (20%), Positives = 32/86 (37%), Gaps = 4/86 (4%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           +  + S+   L+V N+ +   + D    +R +       +      +   SKGF  VT  
Sbjct: 4   NSESKSTPKRLHVSNIPFRFRDPD----LRQMFGQFGKILDVEIIFNERGSKGFGFVTFE 59

Query: 123 SEESMSLVMERLPTLELHGRKPMVAY 148
           +        E+L    + GRK  V  
Sbjct: 60  NSADADRAREKLHGTVVEGRKIEVNN 85

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.7 bits (87), Expect = 7e-05
 Identities = 19/83 (22%), Positives = 28/83 (33%), Gaps = 8/83 (9%)

Query: 66  TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEE 125
           T SS   LYV NL   T+E  +           F ++K        + + +  V   + E
Sbjct: 4   TMSSVKILYVRNLMLSTSEEMIEKE--------FNNIKPGAVERVKKIRDYAFVHFSNRE 55

Query: 126 SMSLVMERLPTLELHGRKPMVAY 148
                M+ L    L G    V  
Sbjct: 56  DAVEAMKALNGKVLDGSPIEVTL 78

>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 = 37.8 bits (87), Expect = 8e-05
 Identities = 13/78 (16%), Positives = 30/78 (38%), Gaps = 2/78 (2%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
             LY+ NL+   TE D+          +            G+ +G   +T  ++E     
Sbjct: 19  KVLYLKNLSPRVTERDLVSLFARF--QEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQA 76

Query: 131 MERLPTLELHGRKPMVAY 148
           +  +   +L+G+  ++ +
Sbjct: 77  LHLVNGYKLYGKILVIEF 94

>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 = 37.7 bits (87), Expect = 8e-05
 Identities = 16/80 (20%), Positives = 28/80 (35%), Gaps = 7/80 (8%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
            L   NL++  TE ++ +          +         +G+SKG   +   SE      +
Sbjct: 18  TLLAKNLSFNITEDELKEVFEDALEIRLVSQ-------DGKSKGIAYIEFKSEADAEKNL 70

Query: 132 ERLPTLELHGRKPMVAYPTR 151
           E     E+ GR   + Y   
Sbjct: 71  EEKQGAEIDGRSVSLYYTGE 90

>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 = 37.5 bits (87), Expect = 9e-05
 Identities = 17/105 (16%), Positives = 31/105 (29%), Gaps = 21/105 (20%)

Query: 67  SSSHCNLYVGNLTWW-TTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEE 125
            S +  +++GNL      ++D+       G      V            GF  V   +E 
Sbjct: 12  RSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHK----------GFAFVQYVNER 61

Query: 126 SMSLVMERLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSRRS 170
           +    +       + G+   +            A  P  +RS  S
Sbjct: 62  NARAAVAGEDGRMIAGQVLDINL----------AAEPKVNRSGPS 96

>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 = 37.8 bits (87), Expect = 9e-05
 Identities = 16/77 (20%), Positives = 30/77 (38%), Gaps = 2/77 (2%)

Query: 72  NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVM 131
           +++VGN+ +  TE  + D    +     +  +   +   G+ KG+       +E+    M
Sbjct: 10  SVFVGNIPYEATEEQLKDIFSEV--GPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAM 67

Query: 132 ERLPTLELHGRKPMVAY 148
             L   E  GR   V  
Sbjct: 68  RNLNGREFSGRALRVDN 84

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.4 bits (86), Expect = 9e-05
 Identities = 15/83 (18%), Positives = 27/83 (32%), Gaps = 9/83 (10%)

Query: 66  TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEE 125
           T  S   + V  L    +  D+ D +R  G   + DV+               V    +E
Sbjct: 11  TRRSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQKDG---------MGMVEYLRKE 61

Query: 126 SMSLVMERLPTLELHGRKPMVAY 148
            M   + +L   +    +   +Y
Sbjct: 62  DMEYALRKLDDTKFRSHEGETSY 84

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.5 bits (86), Expect = 1e-04
 Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 4/87 (4%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
            NLY+ NL     E ++ + ++  G      +       +G S+G     + S E    V
Sbjct: 19  TNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS---SGTSRGVGFARMESTEKCEAV 75

Query: 131 MERLPTLELHGRKPMVAYPTRNVLYQF 157
           +       +    P V+ PT  +L +F
Sbjct: 76  IGHFNGKFIKTP-PGVSAPTEPLLCKF 101

>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 = 36.6 bits (84), Expect = 2e-04
 Identities = 15/79 (18%), Positives = 27/79 (34%), Gaps = 4/79 (5%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LYVGNL+   TE  +      IG       K     ++     F           +  + 
Sbjct: 11  LYVGNLSRDVTEVLILQLFSQIG--PCKSCKMITEHTSNDPYCFVEFY--EHRDAAAALA 66

Query: 133 RLPTLELHGRKPMVAYPTR 151
            +   ++ G++  V + T 
Sbjct: 67  AMNGRKILGKEVKVNWATT 85

>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 = 36.2 bits (83), Expect = 2e-04
 Identities = 15/78 (19%), Positives = 29/78 (37%), Gaps = 2/78 (2%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
             + V NL+  T E D+ +  R         +   ++ + GQSKGF  ++    E  +  
Sbjct: 9   ATIRVTNLSEDTRETDLQELFRPF--GSISRIYLAKDKTTGQSKGFAFISFHRREDAARA 66

Query: 131 MERLPTLELHGRKPMVAY 148
           +  +           V +
Sbjct: 67  IAGVSGFGYDHLILNVEW 84

>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 = 35.9 bits (82), Expect = 2e-04
 Identities = 12/71 (16%), Positives = 25/71 (35%), Gaps = 2/71 (2%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           LY+  L   TT+ D+    +       +  K   + +  + KG+  V   S  +    + 
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPY--GKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVT 58

Query: 133 RLPTLELHGRK 143
            L    +  + 
Sbjct: 59  ALKASGVQAQM 69

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.5 bits (81), Expect = 4e-04
 Identities = 12/71 (16%), Positives = 28/71 (39%), Gaps = 3/71 (4%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           ++VG +   T E  + D            ++   +  +G+ +GF  VT    +S+  ++ 
Sbjct: 5   IFVGGIKEDTEEHHLRDYFEQ--YGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 62

Query: 133 RLPTLELHGRK 143
                 ++G  
Sbjct: 63  -QKYHTVNGHN 72

>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 = 35.6 bits (81), Expect = 5e-04
 Identities = 14/84 (16%), Positives = 32/84 (38%), Gaps = 8/84 (9%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
             +++ NL++ + E  + + ++     D   V+   +     SKG       ++E+    
Sbjct: 9   KTVFIRNLSFDSEEEALGEVLQQF--GDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKC 66

Query: 131 MERLPT------LELHGRKPMVAY 148
           +           L+L GR+  V  
Sbjct: 67  LAAASLEAEGGGLKLDGRQLKVDL 90

>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 = 35.1 bits (80), Expect = 0.001
 Identities = 16/89 (17%), Positives = 32/89 (35%), Gaps = 3/89 (3%)

Query: 63  SQATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLG 122
           S+   S     ++GNL +  TE  + +  R + +      +   N    + KGF      
Sbjct: 8   SRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSN--PERLKGFGYAEFE 65

Query: 123 SEESMSLVMERLPTLELHGRKPMVAYPTR 151
             +S+   +  L    L  ++  V    +
Sbjct: 66  DLDSLLSALS-LNEESLGNKRIRVDVADQ 93

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.8 bits (77), Expect = 0.002
 Identities = 13/81 (16%), Positives = 21/81 (25%), Gaps = 10/81 (12%)

Query: 71  CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLV 130
             LYV       T   +  A        F       + S    +    VT    ES    
Sbjct: 6   NTLYVYGED--MTPTLLRGA--------FSPFGNIIDLSMDPPRNCAFVTYEKMESADQA 55

Query: 131 MERLPTLELHGRKPMVAYPTR 151
           +  L   ++   +  V    +
Sbjct: 56  VAELNGTQVESVQLKVNIARK 76

>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 = 33.6 bits (76), Expect = 0.002
 Identities = 13/78 (16%), Positives = 27/78 (34%), Gaps = 4/78 (5%)

Query: 69  SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMS 128
            + ++Y+       T  D+ + +   G    I ++      +   KG   V   S ES  
Sbjct: 5   KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTL---HKAFKGSIFVVFDSIESAK 61

Query: 129 LVMERLPTLELHGRKPMV 146
             +E  P  +      ++
Sbjct: 62  KFVE-TPGQKYKETDLLI 78

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 87

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.9 bits (74), Expect = 0.003
 Identities = 15/96 (15%), Positives = 29/96 (30%), Gaps = 12/96 (12%)

Query: 73  LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME 132
           + V  L    +  D+          D +        ++    G   V    +E M+  + 
Sbjct: 3   VVVSGLPPSGSWQDL---------KDHMREAGDVCYADVYRDGTGVVEFVRKEDMTYAVR 53

Query: 133 RLPTLELHGRKPMVAYPTRNVLYQFEAQNPLRSRSR 168
           +L   +    +   AY           ++P   RSR
Sbjct: 54  KLDNTKFRSHEGETAYIRVK---VDGPRSPSYGRSR 86

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 32.8 bits (74), Expect = 0.003
 Identities = 6/85 (7%), Positives = 25/85 (29%), Gaps = 1/85 (1%)

Query: 67  SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEES 126
           +     + + NL+    + ++                      +  +     +   +++S
Sbjct: 1   TLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDS 60

Query: 127 MSLVMERLPTLELHGRKPMVAYPTR 151
               ++ +    L  R+  V+   +
Sbjct: 61  AERALQ-MNRSLLGNREISVSLADK 84

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	172
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.91
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.91
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.91
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.9
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.9
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.9
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.9
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.9
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.9
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.89
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.89
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.89
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.88
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.88
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.88
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.88
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.88
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.88
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.88
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.88
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.88
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.88
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.88
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.88
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.88
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.87
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.87
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.87
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.87
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.86
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.86
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.86
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.86
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.86
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.86
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.86
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.86
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.85
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.85
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.85
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.84
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.84
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.84
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.84
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.83
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.83
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.83
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.82
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.82
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.82
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.81
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.81
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.81
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.81
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.81
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.81
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.81
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.8
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.8
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.8
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.8
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.79
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.79
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.79
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.79
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.79
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.79
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.78
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.78
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.77
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.77
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.77
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.76
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.75
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.72
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.72
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.71
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.71
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.7
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.66
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	99.65
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.59
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.58
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.55
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.51
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.5
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.39
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	97.73
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.72
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	97.69
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	95.57

>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=99.91  E-value=2.6e-24  Score=139.98  Aligned_cols=85  Identities=19%  Similarity=0.292  Sum_probs=80.0

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||..+++++|+++|++||  .+..++|++++.+|.++|||||+|.+.++|++|++.|||..|+|+.|+|
T Consensus         6 ~~~~~tlfV~nLp~~~t~~~l~~~F~~~G--~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V   83 (93)
T d1x5ua1           6 RNQDATVYVGGLDEKVSEPLLWELFLQAG--PVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRV   83 (93)
T ss_dssp             CCTTTEEEEECCCTTCCHHHHHHHHHTTS--CEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEE
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHHhC--CccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            34457999999999999999999999999  9999999999999999999999999999999999999999999999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      ++|++..
T Consensus        84 ~~A~~~~   90 (93)
T d1x5ua1          84 NKASAHN   90 (93)
T ss_dssp             EETTTTS
T ss_pred             EEcCCCC
Confidence            9998754

>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=99.91  E-value=2.8e-24  Score=136.64  Aligned_cols=80  Identities=21%  Similarity=0.320  Sum_probs=77.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      +++|||+|||+.+++++|+++|++||  .|..+++++++.+|+++|||||+|.+.++|++||+.|||..++|+.|+|++|
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G--~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a   79 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIG--PINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYA   79 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTS--CEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhC--CcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            46899999999999999999999999  8999999999989999999999999999999999999999999999999999


Q ss_pred             CC
Q psy8001         150 TR  151 (172)
Q Consensus       150 ~~  151 (172)
                      ++
T Consensus        80 ~p   81 (82)
T d1b7fa1          80 RP   81 (82)
T ss_dssp             CC
T ss_pred             CC
Confidence            76

>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=99.91  E-value=4.3e-24  Score=137.59  Aligned_cols=83  Identities=18%  Similarity=0.238  Sum_probs=78.4

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...+++|||+|||..+++++|+++|++||  .|..+++++|+.+|+++|||||+|.+.++|++|++.|||..|+|+.|+|
T Consensus         4 s~~~~~l~V~nL~~~~t~~~l~~~F~~~G--~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V   81 (88)
T d1rk8a_           4 SVEGWILFVTSIHEEAQEDEIQEKFCDYG--EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV   81 (88)
T ss_dssp             CC-CEEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcC--CcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            44578999999999999999999999999  9999999999999999999999999999999999999999999999999


Q ss_pred             eccCC
Q psy8001         147 AYPTR  151 (172)
Q Consensus       147 ~~a~~  151 (172)
                      +||.+
T Consensus        82 ~~a~~   86 (88)
T d1rk8a_          82 DWCFV   86 (88)
T ss_dssp             EESEE
T ss_pred             EEecC
Confidence            99965

>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=99.90  E-value=1.2e-23  Score=139.14  Aligned_cols=84  Identities=15%  Similarity=0.225  Sum_probs=79.3

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      +++++|||+|||+.+++++|+++|+.||  .+..++++.++.+|.++|||||+|.+.++|+.||+.|||..|+|+.|+|+
T Consensus        16 p~~~~l~V~nLp~~~te~~l~~~F~~~G--~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~   93 (102)
T d2cpza1          16 PEGANLFIYHLPQEFGDQDLLQMFMPFG--NVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQ   93 (102)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGS--CCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhc--cccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            3457899999999999999999999999  89999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      +++++.
T Consensus        94 ~a~~k~   99 (102)
T d2cpza1          94 LKRSKN   99 (102)
T ss_dssp             CCCCSC
T ss_pred             EeCCCC
Confidence            998753

>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=99.90  E-value=6.6e-24  Score=137.24  Aligned_cols=84  Identities=19%  Similarity=0.307  Sum_probs=79.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||..+++++|+++|++||  .|..++|+.|+.+|.++|||||+|.+.++|++||+.|||..|+|++|+|+
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G--~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~   83 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFG--SISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVE   83 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTC--CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhc--ccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            3557899999999999999999999999  89999999999899999999999999999999999999999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      ||+++.
T Consensus        84 ~akp~~   89 (90)
T d2cq0a1          84 WAKPST   89 (90)
T ss_dssp             ESSCCC
T ss_pred             eeeCCC
Confidence            998753

>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=99.90  E-value=9.5e-24  Score=133.58  Aligned_cols=78  Identities=18%  Similarity=0.327  Sum_probs=75.6

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccCC
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTR  151 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~~  151 (172)
                      .|||+|||+.+++++|+++|++||  .+.+++|++|+.+|+++|||||+|.+.++|..|++.|||..+.|+.|+|.||+.
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G--~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~~   79 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAG--PILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQR   79 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECCC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhC--CEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            699999999999999999999999  899999999999999999999999999999999999999999999999999964

>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=99.90  E-value=1.2e-23  Score=133.61  Aligned_cols=80  Identities=24%  Similarity=0.312  Sum_probs=76.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .++|||+|||..+++++|+++|++||  .+..++++.+..+|.++|||||+|.+.++|+.|++.|||..++|++|+|++|
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G--~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~A   79 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIG--EIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYA   79 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhC--CcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            45799999999999999999999999  9999999999989999999999999999999999999999999999999999


Q ss_pred             CC
Q psy8001         150 TR  151 (172)
Q Consensus       150 ~~  151 (172)
                      +|
T Consensus        80 kP   81 (82)
T d1fxla1          80 RP   81 (82)
T ss_dssp             CC
T ss_pred             eC
Confidence            76

>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=99.90  E-value=9.6e-23  Score=141.73  Aligned_cols=83  Identities=19%  Similarity=0.221  Sum_probs=78.6

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+++++++|+++|++||  .|..++|++++.+|+++|||||+|.+.++|+.||+.|||..|+|++|+|++
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~G--~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~  118 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERYG--PIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL  118 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHS--CEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhc--cccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            445899999999999999999999999  999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCC
Q psy8001         149 PTRNV  153 (172)
Q Consensus       149 a~~~~  153 (172)
                      |+...
T Consensus       119 a~~~~  123 (139)
T d1u6fa1         119 AASGH  123 (139)
T ss_dssp             SSCCC
T ss_pred             cCCCC
Confidence            97643

>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=99.90  E-value=9.1e-24  Score=135.18  Aligned_cols=81  Identities=16%  Similarity=0.336  Sum_probs=77.5

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      .+|||+|||+.+++++|+++|++||  .|..++|++|+.+|.++|||||+|.+.++|+.|++.|||..|+|+.|+|++|+
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G--~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~   79 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFG--PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS   79 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSS--CEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcC--ccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            3799999999999999999999999  89999999999999999999999999999999999999999999999999998


Q ss_pred             CCC
Q psy8001         151 RNV  153 (172)
Q Consensus       151 ~~~  153 (172)
                      +..
T Consensus        80 ~~~   82 (85)
T d2u2fa_          80 VGA   82 (85)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            643

>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=99.89  E-value=3.6e-23  Score=134.49  Aligned_cols=81  Identities=25%  Similarity=0.393  Sum_probs=77.8

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..+.++.++.+|.++|||||+|.+.++|+.||+.|||..|+|+.|+|+|
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~G--~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~   83 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKSG--DIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDW   83 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHC--CcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            467999999999999999999999999  999999999999999999999999999999999999999999999999999


Q ss_pred             cCC
Q psy8001         149 PTR  151 (172)
Q Consensus       149 a~~  151 (172)
                      +..
T Consensus        84 a~~   86 (93)
T d1h2vz_          84 DAG   86 (93)
T ss_dssp             ESC
T ss_pred             cCC
Confidence            864

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=7.2e-24  Score=136.78  Aligned_cols=82  Identities=22%  Similarity=0.315  Sum_probs=78.1

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ...+|||+|||+++++++|+++|++||  .|..+.|++|+.+|.++|||||+|.+.++|++|++.|||..|+|+.|+|++
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~G--~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~   81 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPFG--DITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL   81 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTS--CCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhCC--eEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            346899999999999999999999999  899999999999999999999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      |+++
T Consensus        82 a~p~   85 (89)
T d2cqba1          82 AKPM   85 (89)
T ss_dssp             CCCC
T ss_pred             eCCC
Confidence            9764

>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=99.89  E-value=5.3e-23  Score=135.16  Aligned_cols=83  Identities=22%  Similarity=0.289  Sum_probs=78.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|.+||  .|..++|+.|+.+++++|||||+|.+.++|++||+.|||..|+|+.|+|.
T Consensus         6 ~~~~~lfV~nL~~~~t~~~l~~~F~~~g--~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~   83 (99)
T d1whwa_           6 SGSGRLFVRNLSYTSSEEDLEKLFSAYG--PLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVL   83 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTS--CEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEE
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcC--CceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3456899999999999999999999999  89999999999999999999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +++.+
T Consensus        84 ~a~~~   88 (99)
T d1whwa_          84 PSTIK   88 (99)
T ss_dssp             ECCCC
T ss_pred             ECCCC
Confidence            99864

>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=99.88  E-value=8.8e-23  Score=129.92  Aligned_cols=77  Identities=29%  Similarity=0.434  Sum_probs=73.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      .+.++|||+|||+.+++++|+++|++||  .+.+++|++++.+|+++|||||+|.+.++|+.|++.|||..|+|++|+|
T Consensus         7 ~~~~~l~V~nL~~~~te~~l~~~F~~~G--~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           7 DPNCCLGVFGLSLYTTERDLREVFSKYG--PIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTS--CEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhC--CCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            3457899999999999999999999999  9999999999989999999999999999999999999999999999987

>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=99.88  E-value=8.1e-23  Score=133.09  Aligned_cols=84  Identities=15%  Similarity=0.379  Sum_probs=77.1

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecC-CCCCcccEEEEEeCCHHHHHHHHHHC-CCceeCCcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENA-SNGQSKGFCTVTLGSEESMSLVMERL-PTLELHGRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~-~~g~~~g~afv~f~~~~~a~~al~~l-~g~~l~g~~l~  145 (172)
                      ....+|||+|||+.+++++|+++|++||  .|..++|+++. .+|.++|||||+|.+.++|++||+.| ||..|+|++|+
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G--~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~   83 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTFG--ELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLV   83 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTS--CEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhC--CceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEE
Confidence            3456899999999999999999999999  99999998875 47899999999999999999999998 89999999999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |+||+...
T Consensus        84 V~~A~~~~   91 (94)
T d2cpha1          84 LEWADSEV   91 (94)
T ss_dssp             EEECCCCC
T ss_pred             EEEcCCCC
Confidence            99998653

>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=99.88  E-value=3.8e-23  Score=131.04  Aligned_cols=79  Identities=18%  Similarity=0.265  Sum_probs=69.2

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      |+|||+|||+++++++|+++|++||  .+..+.++.+..+|+++|||||+|.+.++|++|++.|||..++|++|+|++++
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G--~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~   79 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDIN--VVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN   79 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTT--CCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhC--cEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            6899999999999999999999999  88888888888789999999999999999999999999999999999999997


Q ss_pred             C
Q psy8001         151 R  151 (172)
Q Consensus       151 ~  151 (172)
                      |
T Consensus        80 P   80 (81)
T d2ghpa1          80 P   80 (81)
T ss_dssp             C
T ss_pred             C
Confidence            6

>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=99.88  E-value=9.9e-23  Score=130.25  Aligned_cols=79  Identities=19%  Similarity=0.311  Sum_probs=75.0

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC--cccEE
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG--RKPMV  146 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g--~~l~v  146 (172)
                      .+++|||+|||+.+++++|+++|++||  .|..+++++++.+|+++|||||+|.+.++|++||+.|||..+.|  ++|+|
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G--~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V   82 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYG--SIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSV   82 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhC--CEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEE
Confidence            456799999999999999999999999  89999999999999999999999999999999999999999987  88999


Q ss_pred             ecc
Q psy8001         147 AYP  149 (172)
Q Consensus       147 ~~a  149 (172)
                      +||
T Consensus        83 ~~A   85 (85)
T d1b7fa2          83 RLA   85 (85)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            986

>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=99.88  E-value=1.2e-22  Score=129.86  Aligned_cols=78  Identities=18%  Similarity=0.292  Sum_probs=74.0

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC--cccEEe
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG--RKPMVA  147 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g--~~l~v~  147 (172)
                      +++|||+|||+.+++++|+++|++||  .|..++++.|+.+|.++|||||+|.+.++|++|++.|||..+.|  ++|+|+
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G--~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~   83 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYG--RIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVK   83 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhC--CccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEE
Confidence            46899999999999999999999999  99999999999899999999999999999999999999999998  459998


Q ss_pred             cc
Q psy8001         148 YP  149 (172)
Q Consensus       148 ~a  149 (172)
                      ||
T Consensus        84 ~A   85 (85)
T d1fxla2          84 FA   85 (85)
T ss_dssp             EC
T ss_pred             eC
Confidence            86

>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=99.88  E-value=7.1e-23  Score=132.25  Aligned_cols=82  Identities=21%  Similarity=0.340  Sum_probs=77.5

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      +..+|||+|||+.+++++|+++|++||  .|..+.++.++.+|.++|||||+|.+.++|+.||+.|||..|+|++|+|++
T Consensus         4 ~~~kifV~nLp~~~t~~~l~~~F~~~G--~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~   81 (90)
T d1x5sa1           4 DEGKLFVGGLSFDTNEQSLEQVFSKYG--QISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQ   81 (90)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHS--CCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccc--cccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            345799999999999999999999999  899999999998999999999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      |.+.
T Consensus        82 a~~~   85 (90)
T d1x5sa1          82 AGKS   85 (90)
T ss_dssp             EECC
T ss_pred             cCCC
Confidence            9754

>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=99.88  E-value=2.4e-23  Score=130.74  Aligned_cols=76  Identities=20%  Similarity=0.424  Sum_probs=73.2

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      |+|||+|||+.+++++|+++|++||  .|..++|++|+.+|+++|||||+|.+.++|++||+ +|+..|+|+.|+|+.|
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G--~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFG--EVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTS--CCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhC--CcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEEC
Confidence            6899999999999999999999999  89999999999999999999999999999999998 7999999999999876

>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=99.88  E-value=5.3e-23  Score=136.32  Aligned_cols=82  Identities=21%  Similarity=0.376  Sum_probs=77.9

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..+|||+|||+.+++++|+++|++||  .|..++|++++.+|+++|||||+|.+.++|+.|++.|||..|.|+.|+|+++
T Consensus         8 ~rtl~V~nLp~~~te~~l~~~f~~~G--~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a   85 (104)
T d1p1ta_           8 LRSVFVGNIPYEATEEQLKDIFSEVG--PVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNA   85 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTS--CCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEET
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccc--cccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            45799999999999999999999999  8999999999999999999999999999999999999999999999999999


Q ss_pred             CCCC
Q psy8001         150 TRNV  153 (172)
Q Consensus       150 ~~~~  153 (172)
                      .+..
T Consensus        86 ~~~~   89 (104)
T d1p1ta_          86 ASEK   89 (104)
T ss_dssp             TCTT
T ss_pred             CCCC
Confidence            7643

>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=99.88  E-value=2.7e-22  Score=127.97  Aligned_cols=78  Identities=21%  Similarity=0.345  Sum_probs=74.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..+|||+|||+.+++++|+++|++||  .+..++|++|+.+|+++|||||+|.+.++|++||+ +++..|+|+.|+|+.|
T Consensus         6 ~~~lfV~nlp~~~te~~l~~~F~~~G--~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~Gr~i~V~~A   82 (84)
T d1l3ka1           6 LRKLFIGGLSFETTDESLRSHFEQWG--TLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRA   82 (84)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEEC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhhc--cccceeecccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEee
Confidence            35899999999999999999999999  99999999999999999999999999999999998 6999999999999987


Q ss_pred             C
Q psy8001         150 T  150 (172)
Q Consensus       150 ~  150 (172)
                      .
T Consensus        83 ~   83 (84)
T d1l3ka1          83 V   83 (84)
T ss_dssp             C
T ss_pred             e
Confidence            4

>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=99.88  E-value=2.5e-22  Score=132.85  Aligned_cols=80  Identities=21%  Similarity=0.393  Sum_probs=75.2

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..++|+.++.+|+++|||||+|.+.++|++||+.+|+ .|+|++|+|++
T Consensus         9 ~~~~lfV~nLp~~~te~~l~~~F~~~G--~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~   85 (103)
T d2cqda1           9 TFTKIFVGGLPYHTTDASLRKYFEGFG--DIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNL   85 (103)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTS--CEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEE
T ss_pred             CCcEEEEeCCCCcCcHHHHHHHHhhcc--cccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEE
Confidence            446799999999999999999999999  999999999999999999999999999999999998876 79999999999


Q ss_pred             cCC
Q psy8001         149 PTR  151 (172)
Q Consensus       149 a~~  151 (172)
                      +..
T Consensus        86 a~~   88 (103)
T d2cqda1          86 AYL   88 (103)
T ss_dssp             STT
T ss_pred             cCC
Confidence            875

>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=99.88  E-value=3e-22  Score=129.30  Aligned_cols=80  Identities=28%  Similarity=0.405  Sum_probs=74.5

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..++|++|+.+|.++|||||+|.+.++|++||+.  ...|+|+.|.|++
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~G--~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~--~~~l~Gr~i~v~~   82 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTFG--EVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ--RHMIDGRWCDCKL   82 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGGS--CEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS--CEEETTEEEEEEC
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhhc--ccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhc--CCccCCEEeEEEe
Confidence            456899999999999999999999999  999999999999999999999999999999999984  4589999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      +.++
T Consensus        83 a~~k   86 (90)
T d2cqga1          83 PNSK   86 (90)
T ss_dssp             CCTT
T ss_pred             CCCC
Confidence            9764

>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=99.88  E-value=1.8e-22  Score=126.99  Aligned_cols=76  Identities=21%  Similarity=0.326  Sum_probs=73.4

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      +|||+|||+.+++++|+++|++||  .|..++|+.++ +|+++|||||+|.+.++|+.|++.|||..++|+.|+|+++.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G--~v~~~~i~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFG--TLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHS--CEEEEEESCSS-CCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhC--CCeEEEEEEee-ccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            699999999999999999999999  99999999987 89999999999999999999999999999999999999985

>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=99.88  E-value=1.6e-22  Score=126.34  Aligned_cols=75  Identities=27%  Similarity=0.481  Sum_probs=71.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      +|||+|||+++++++|+++|++||  .+..+.|+.++.+++++|||||+|.+.++|++||+ +++..|+|+.|+|+.|
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G--~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFG--EVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTS--CEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEECCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhc--cccccccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEECCCEEEeeEC
Confidence            489999999999999999999999  99999999999999999999999999999999998 7999999999999764

>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=99.87  E-value=3.1e-22  Score=127.88  Aligned_cols=78  Identities=22%  Similarity=0.327  Sum_probs=72.9

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCC---CcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNG---QSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        73 v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g---~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      |||+|||+.+++++|+++|++||  .|..++|+.++.++   .++|||||+|.+.++|++|++.|||..|+|+.|+|+++
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G--~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a   78 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVG--AIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRIS   78 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTS--CEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECS
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhC--CccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            79999999999999999999999  99999999987665   46899999999999999999999999999999999998


Q ss_pred             CCC
Q psy8001         150 TRN  152 (172)
Q Consensus       150 ~~~  152 (172)
                      ++.
T Consensus        79 ~~~   81 (85)
T d2cpfa1          79 ERA   81 (85)
T ss_dssp             SCS
T ss_pred             CCC
Confidence            653

>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=99.87  E-value=1.7e-22  Score=128.59  Aligned_cols=78  Identities=22%  Similarity=0.381  Sum_probs=73.0

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhcCCCCeEE-EEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccCC
Q psy8001          73 LYVGNLTWWTTEADMSDAIRSIGVPDFID-VKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTR  151 (172)
Q Consensus        73 v~V~nL~~~~~~~~l~~~f~~~g~~~~~~-~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~~  151 (172)
                      |||+|||+++++++|+++|++||  .+.. +++++++.+|+++|||||+|.+.++|++||+.|||..++|++|+|++|.+
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G--~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~~   78 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFG--VILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFK   78 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTS--CBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhC--ceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEecC
Confidence            79999999999999999999999  7755 47889998999999999999999999999999999999999999999975


Q ss_pred             C
Q psy8001         152 N  152 (172)
Q Consensus       152 ~  152 (172)
                      +
T Consensus        79 k   79 (83)
T d1x5ta1          79 K   79 (83)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.87  E-value=7.3e-22  Score=127.47  Aligned_cols=81  Identities=20%  Similarity=0.314  Sum_probs=74.4

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ....+|||+|||..+++++|+++|++||  .|..++++.++.++  +|||||+|.+.++|+.|++.|||..|.|+.|+|.
T Consensus         6 ~~~~tl~V~nLp~~~te~~l~~~F~~~G--~i~~v~i~~d~~~~--~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~   81 (90)
T d2cqia1           6 GQPRTLYVGNLSRDVTEVLILQLFSQIG--PCKSCKMITEHTSN--DPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVN   81 (90)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHHS--CEEEEEEECCCCSS--CCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcC--CceeeeeecccCcc--ceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3446899999999999999999999999  99999999987543  7899999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      ||+++
T Consensus        82 ~a~~~   86 (90)
T d2cqia1          82 WATTP   86 (90)
T ss_dssp             ECCCT
T ss_pred             EcCCC
Confidence            99764

>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=99.87  E-value=5.9e-22  Score=129.68  Aligned_cols=86  Identities=17%  Similarity=0.318  Sum_probs=78.6

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCC------Cce
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP------TLE  138 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~------g~~  138 (172)
                      .....+++|||+|||+.+++++|+++|.+||  .+..+.++.++.++.++|||||+|.+.++|.+||+.||      |..
T Consensus         3 ~~~~~~~tlfV~nLp~~~te~~l~~~f~~~G--~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~   80 (98)
T d1x4ha1           3 SDVTEGKTVFIRNLSFDSEEEALGEVLQQFG--DLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLK   80 (98)
T ss_dssp             CCCCCCCCEEEESCCTTCCHHHHHHHHHTTS--CEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEE
T ss_pred             cCCCCCCEEEEcCCCCcCCHHHHHHHHhccc--cceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcE
Confidence            3445567999999999999999999999999  89999999999899999999999999999999999876      678


Q ss_pred             eCCcccEEeccCCC
Q psy8001         139 LHGRKPMVAYPTRN  152 (172)
Q Consensus       139 l~g~~l~v~~a~~~  152 (172)
                      +.|+.|+|.+|+++
T Consensus        81 ~~gr~l~v~~a~~k   94 (98)
T d1x4ha1          81 LDGRQLKVDLAVTR   94 (98)
T ss_dssp             SSSCEEEEECCCCC
T ss_pred             ECCEEEEEEECCCC
Confidence            99999999999764

>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=99.86  E-value=2.8e-22  Score=132.57  Aligned_cols=80  Identities=21%  Similarity=0.336  Sum_probs=75.8

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .++|||+|||+.+++++|+++|++||  .|..+.|..|+.++.++|||||+|.+.++|++||+ ++|..|+|+.|.|++|
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G--~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i~V~~a   96 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWG--KLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVVEPKRA   96 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSC--CCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEETTEEEEEECC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhC--cccceeecccccCCCccCeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEEC
Confidence            46899999999999999999999999  89999999999999999999999999999999997 7999999999999998


Q ss_pred             CCC
Q psy8001         150 TRN  152 (172)
Q Consensus       150 ~~~  152 (172)
                      .++
T Consensus        97 ~~k   99 (103)
T d1x4ba1          97 VAR   99 (103)
T ss_dssp             SSC
T ss_pred             ccc
Confidence            764

>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=99.86  E-value=1.1e-21  Score=123.59  Aligned_cols=76  Identities=18%  Similarity=0.321  Sum_probs=72.7

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .+|||+|||+++++++|+++|++||  .+..+.++.++.++.++|||||+|.+.+++++|++ |||..|+|+.|+|+.|
T Consensus         3 r~lfV~nLp~~~te~~l~~~F~~~G--~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           3 KKIFVGGIKEDTEEHHLRDYFEQYG--KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             SEEEEECCTTTCCHHHHHHHHTTTS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEETTEECEEEEC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHHhc--cccccccccCCCCcccccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEEC
Confidence            5899999999999999999999999  89999999999999999999999999999999996 8999999999999876

>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=99.86  E-value=3.1e-22  Score=124.96  Aligned_cols=75  Identities=20%  Similarity=0.348  Sum_probs=71.3

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .|||||||+++++++|+++|++||  .|..++|+.++.+++++|||||+|.+.++|++||+ +++..|+|+.|.|+.|
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G--~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~-~~~~~i~g~~i~vk~A   75 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFG--EVESIELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHS--CEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTT-CSSCCBTTBCCEEECC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhC--CcccccccccccccccccEEEEEECCHHHHHHHHh-hCCCEECCEEeEEEEC
Confidence            589999999999999999999999  99999999999999999999999999999999997 5888999999999865

>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=99.86  E-value=9.4e-22  Score=129.42  Aligned_cols=86  Identities=20%  Similarity=0.296  Sum_probs=77.3

Q ss_pred             CCCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCe--------EEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCC
Q psy8001          65 ATSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDF--------IDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPT  136 (172)
Q Consensus        65 ~~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~--------~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g  136 (172)
                      .......+|||+|||+.+++++|+++|.+||  .+        ..+.+..++.+|+++|||||+|.+.++|..||+.|||
T Consensus         3 ~~~~~~~~i~V~nLp~~~te~~l~~~F~~~G--~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g   80 (101)
T d2cpea1           3 DEDSDNSAIYVQGLNDSVTLDDLADFFKQCG--VVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDG   80 (101)
T ss_dssp             CCCCCCCEEEEECCCTTCCHHHHHHHHTTTS--CBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTT
T ss_pred             CCCCCCCEEEEECCCCcCCHHHHHHHHHHCc--eEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCC
Confidence            3445667999999999999999999999999  55        3567778888899999999999999999999999999


Q ss_pred             ceeCCcccEEeccCCC
Q psy8001         137 LELHGRKPMVAYPTRN  152 (172)
Q Consensus       137 ~~l~g~~l~v~~a~~~  152 (172)
                      ..|+|+.|+|++|+++
T Consensus        81 ~~~~gr~i~V~~a~~~   96 (101)
T d2cpea1          81 KDFQGSKLKVSLARKK   96 (101)
T ss_dssp             CEETTEECEEECSSCC
T ss_pred             CEECCEEEEEEEcCCC
Confidence            9999999999999764

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=2.2e-21  Score=125.97  Aligned_cols=82  Identities=28%  Similarity=0.359  Sum_probs=75.0

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ....+|||+|||+.+++++|+++|++||  .|..++++.++  +.++|||||+|.+.++|.+||+.|||..|+|++|+|+
T Consensus         9 ~~~~~l~v~nLp~~~t~~~L~~~F~~~G--~v~~v~~~~~~--~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~   84 (93)
T d2cq3a1           9 STPKRLHVSNIPFRFRDPDLRQMFGQFG--KILDVEIIFNE--RGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVN   84 (93)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTS--CEEEEEEECCT--TTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcc--eeeeccccccc--cCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3456899999999999999999999999  89999999886  3368999999999999999999999999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      +|+++.
T Consensus        85 ~A~~r~   90 (93)
T d2cq3a1          85 NATARV   90 (93)
T ss_dssp             ECCSSC
T ss_pred             ecCcCC
Confidence            998753

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=7.8e-22  Score=127.07  Aligned_cols=79  Identities=20%  Similarity=0.331  Sum_probs=73.2

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..+|||+|||+.+++++|+++|++||  .|..++|+.++  +.++|||||+|.+.++|++||+.|||..|+|++|+|+++
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G--~v~~~~i~~~~--~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a   83 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFG--NILSCKVVCDE--NGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF   83 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTS--CEEEEEECCBT--TBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcC--CceEEEEEeec--CCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            34799999999999999999999999  89999999886  346899999999999999999999999999999999999


Q ss_pred             CCC
Q psy8001         150 TRN  152 (172)
Q Consensus       150 ~~~  152 (172)
                      +++
T Consensus        84 ~~~   86 (89)
T d1cvja2          84 KSR   86 (89)
T ss_dssp             CCT
T ss_pred             CCC
Confidence            754

>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=99.86  E-value=4.8e-22  Score=130.98  Aligned_cols=79  Identities=20%  Similarity=0.291  Sum_probs=75.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      .++|||+|||+.+++++|+++|+.||  .|..++|++++.+|+++|||||+|.+.++|++|++ |||..|+|+.|+|.++
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G--~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~-l~g~~~~G~~l~V~~a   94 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVG--KVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIVQAS   94 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTS--CEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEETTEEEEEEEH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCC--eEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-HCCCEECCEEEEEEEC
Confidence            46899999999999999999999999  99999999999999999999999999999999996 8999999999999987


Q ss_pred             CC
Q psy8001         150 TR  151 (172)
Q Consensus       150 ~~  151 (172)
                      ++
T Consensus        95 ~~   96 (101)
T d2cq4a1          95 QA   96 (101)
T ss_dssp             HH
T ss_pred             CC
Confidence            53

>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=99.86  E-value=7.9e-22  Score=122.96  Aligned_cols=75  Identities=23%  Similarity=0.327  Sum_probs=71.8

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      +|||+|||+++++++|+++|++||  .+..+.++.++.++.++|||||+|.+.++|++|++ |||..|+|++|+|++|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G--~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFG--KVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTS--CCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhC--CcceeeeeeeccccccCceeEEEECCHHHHHHHHh-cCCCEECCeEEEEEEC
Confidence            589999999999999999999999  89999999999899999999999999999999997 9999999999999876

>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=99.85  E-value=7e-22  Score=126.53  Aligned_cols=81  Identities=10%  Similarity=0.145  Sum_probs=70.8

Q ss_pred             CcceEEEcCCCCCCC-HHHHHHHHHhcCCCCeEEEEEEec-CCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          69 SHCNLYVGNLTWWTT-EADMSDAIRSIGVPDFIDVKFFEN-ASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~-~~~l~~~f~~~g~~~~~~~~i~~~-~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      .+.+|||+|||+.++ +++|+++|++||  .|..++|..+ +.+++++|||||+|.+.++|++||+ |||..|+|+.|+|
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G--~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~l~V   79 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFG--SIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQ-MNRSLLGNREISV   79 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGS--CEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGG-GTTEEETTEEEEE
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhh--hccceeeecccCCccccceeeeEEECCHHHHHHHHh-cCCCEECCEEEEE
Confidence            467999999999876 567999999999  9999998764 5678899999999999999999996 9999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      ++|+++
T Consensus        80 ~~a~~k   85 (86)
T d2ghpa3          80 SLADKK   85 (86)
T ss_dssp             EECCCC
T ss_pred             EEcCCC
Confidence            999865

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=5.4e-21  Score=124.50  Aligned_cols=81  Identities=19%  Similarity=0.308  Sum_probs=72.8

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|++||  .+..+.+..   ++.++|||||+|.+.++|+.||+.|||..|.|++|+|
T Consensus        11 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G--~v~~~~~~~---~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V   85 (95)
T d1x4aa1          11 GNNDCRIYVGNLPPDIRTKDIEDVFYKYG--AIRDIDLKN---RRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRV   85 (95)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEECC---SSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhcCC--ceEEEEecc---cccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            45567899999999999999999999999  888887654   4457899999999999999999999999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      ++|+..
T Consensus        86 ~~a~~~   91 (95)
T d1x4aa1          86 EFPRSG   91 (95)
T ss_dssp             ECCCCC
T ss_pred             EeccCC
Confidence            999753

>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=99.85  E-value=3.3e-22  Score=129.38  Aligned_cols=81  Identities=25%  Similarity=0.354  Sum_probs=73.7

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ....++|||+|||+.+++++|+++|+.||  .+..+.|+.++ +|+++|||||+|.+.++|++||+ |||..|+|+.|+|
T Consensus        10 ~~~~~~ifV~nL~~~~te~~l~~~F~~~G--~i~~~~v~~~~-~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V   85 (91)
T d1fjeb1          10 STTPFNLFIGNLNPNKSVAELKVAISELF--AKNDLAVVDVR-TGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKL   85 (91)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHH--HHHTCCCCEEE-EETTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEE
T ss_pred             CCCCcEEEEeCccCcchHHHHHHHHhcCC--cEEEeeeeecC-CCCccEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEE
Confidence            34567899999999999999999999999  88888876554 89999999999999999999997 9999999999999


Q ss_pred             eccCC
Q psy8001         147 AYPTR  151 (172)
Q Consensus       147 ~~a~~  151 (172)
                      .+|+.
T Consensus        86 ~~ak~   90 (91)
T d1fjeb1          86 EKPKG   90 (91)
T ss_dssp             ECCCC
T ss_pred             EecCC
Confidence            99975

>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=99.84  E-value=9.8e-22  Score=129.58  Aligned_cols=83  Identities=16%  Similarity=0.186  Sum_probs=77.3

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      .+.++|||+|||..+++++|+++|++||  .+..+.++.+..+|+++|||||+|.+.++|+.||+.|||..|.|+.|+|+
T Consensus        16 ~ps~tl~V~nLp~~~t~~~l~~~f~~~G--~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~   93 (102)
T d2cpxa1          16 EPNKVLYLKNLSPRVTERDLVSLFARFQ--EKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIE   93 (102)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHH--HSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcc--ceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEE
Confidence            3457899999999999999999999999  88888888888789999999999999999999999999999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      ||+++
T Consensus        94 ~ak~k   98 (102)
T d2cpxa1          94 FGKNK   98 (102)
T ss_dssp             ECCCC
T ss_pred             eCCCc
Confidence            99864

>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=99.84  E-value=8e-21  Score=123.92  Aligned_cols=77  Identities=17%  Similarity=0.388  Sum_probs=71.7

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||..+++++|+++|++||  .|..++|+.+      +|||||+|.+.++|+.||..|||..|+|+.|+|+|
T Consensus        17 ~~~~l~v~nL~~~~te~~L~~~F~~fG--~i~~v~i~~~------kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~   88 (96)
T d1x4ga1          17 KNCTVYCGGIASGLTDQLMRQTFSPFG--QIMEIRVFPE------KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYW   88 (96)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHHHS--CEEEEEEETT------TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHhC--CceEEEEEec------ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            346899999999999999999999999  9999999865      68999999999999999999999999999999999


Q ss_pred             cCCCC
Q psy8001         149 PTRNV  153 (172)
Q Consensus       149 a~~~~  153 (172)
                      +++.+
T Consensus        89 ak~~p   93 (96)
T d1x4ga1          89 GKESP   93 (96)
T ss_dssp             CCCCC
T ss_pred             cCCCC
Confidence            98643

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=7.9e-21  Score=127.61  Aligned_cols=78  Identities=18%  Similarity=0.234  Sum_probs=72.2

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      .+++|||+|||..+++++|+++|++||  .|..|++..   ++.++|||||+|.+.++|..||+.|||..|+|+.|+|.+
T Consensus         6 ~~r~l~V~nLp~~~te~~l~~~F~~~G--~v~~i~~~~---~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~   80 (114)
T d2f9da1           6 VNRILYIRNLPYKITAEEMYDIFGKYG--PIRQIRVGN---TPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLY   80 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTS--CEEEEEEEC---STTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcC--CeEeecccc---cCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            456899999999999999999999999  899998865   466789999999999999999999999999999999999


Q ss_pred             cCC
Q psy8001         149 PTR  151 (172)
Q Consensus       149 a~~  151 (172)
                      +..
T Consensus        81 a~~   83 (114)
T d2f9da1          81 YNA   83 (114)
T ss_dssp             CCH
T ss_pred             cCC
Confidence            864

>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=99.84  E-value=5.3e-21  Score=125.90  Aligned_cols=80  Identities=19%  Similarity=0.330  Sum_probs=74.8

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..+.+..+. ++.++|||||+|.+.++|.+||+.|||..|.|+.+.|.+
T Consensus        17 ~~~~lfV~nLp~~~te~~L~~~F~~~G--~i~~~~~~~~~-~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~   93 (101)
T d1x5oa1          17 DPTNLYISNLPLSMDEQELENMLKPFG--QVISTRILRDS-SGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAP   93 (101)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTTS--CEEEEEEEECS-SSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhcc--cccceeeeccc-ccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCC
Confidence            346899999999999999999999999  89999988876 888999999999999999999999999999999999988


Q ss_pred             cCC
Q psy8001         149 PTR  151 (172)
Q Consensus       149 a~~  151 (172)
                      ++|
T Consensus        94 ~~P   96 (101)
T d1x5oa1          94 TEP   96 (101)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            865

>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=99.83  E-value=1.2e-20  Score=123.09  Aligned_cols=83  Identities=18%  Similarity=0.412  Sum_probs=73.3

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecC-CCCCcccEEEEEeCCHHHHHHHHHHCCCc--eeCCcccEE
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENA-SNGQSKGFCTVTLGSEESMSLVMERLPTL--ELHGRKPMV  146 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~-~~g~~~g~afv~f~~~~~a~~al~~l~g~--~l~g~~l~v  146 (172)
                      +|+|||+|||..+++++|+++|++||. .+..+.++.+. .+|+++|||||+|.+.++|..|++.|++.  .++|+.|+|
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~-~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V   79 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTE-GVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAV   79 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHST-TEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEE
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCC-cceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEE
Confidence            478999999999999999999999992 28899998875 46889999999999999999999999754  567999999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      +||++..
T Consensus        80 ~~A~p~~   86 (96)
T d2disa1          80 DWAEPEI   86 (96)
T ss_dssp             EESCSSC
T ss_pred             EEcCCCC
Confidence            9998643

>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=99.83  E-value=2.2e-20  Score=118.60  Aligned_cols=77  Identities=17%  Similarity=0.215  Sum_probs=69.7

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeC-CcccE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELH-GRKPM  145 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~-g~~l~  145 (172)
                      .+++.+|||+|||..+++++|+++|+.||  .+..++++.+     .+|||||+|.+.++|.+|++.|||..|. |+.|+
T Consensus         5 ~pP~~tl~V~nLp~~~t~~~l~~~f~~~G--~i~~v~~~~~-----~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~   77 (83)
T d2b0ga1           5 QPPNQILFLTNLPEETNEMMLSMLFNQFP--GFKEVRLVPN-----RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMK   77 (83)
T ss_dssp             CSCCSEEEEESCCTTCCHHHHHHHHTTST--TEEEEEECTT-----TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHhhhccCc--cEEEeeeecc-----cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEE
Confidence            34457999999999999999999999999  8999998754     3689999999999999999999999884 68999


Q ss_pred             EeccC
Q psy8001         146 VAYPT  150 (172)
Q Consensus       146 v~~a~  150 (172)
                      |+||+
T Consensus        78 v~~ak   82 (83)
T d2b0ga1          78 ITFAK   82 (83)
T ss_dssp             EEECC
T ss_pred             EEEec
Confidence            99996

>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=99.83  E-value=2.6e-20  Score=118.82  Aligned_cols=77  Identities=16%  Similarity=0.238  Sum_probs=72.1

Q ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          70 HCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..+|||+|||..+++++|+++|+.||  .+..+.|..++ +|+++|||||+|.+.++|++||+ ++|..+.|+.|.|.++
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G--~v~~v~l~~~~-~~~~kG~afV~f~~~e~a~~al~-~~~~~~~g~~l~v~~~   81 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKG--QVLNIQMRRTL-HKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFK   81 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSC--CEEEEEEEECT-TCCEEEEEEEEESCHHHHHHHHT-CCCCEETTEECEEEEG
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhc--ccccceeeeec-cCCcceEEEEEEcCHHHHHHHHH-HCCCEECCEEEEEEEc
Confidence            45899999999999999999999999  89999998876 89999999999999999999997 7999999999999986


Q ss_pred             C
Q psy8001         150 T  150 (172)
Q Consensus       150 ~  150 (172)
                      +
T Consensus        82 ~   82 (85)
T d1zh5a2          82 D   82 (85)
T ss_dssp             G
T ss_pred             C
Confidence            4

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.82  E-value=1.6e-20  Score=122.51  Aligned_cols=79  Identities=22%  Similarity=0.289  Sum_probs=70.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ....+|||+|||+.+++++|+++|.+||  .+..+..     ++.++|||||+|.+.++|++|++.|||..|+|+.|+|.
T Consensus        14 ~~~~~l~V~nL~~~~te~~l~~~F~~~g--~v~~~~~-----~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~   86 (96)
T d1fjca_          14 RAARTLLAKNLSFNITEDELKEVFEDAL--EIRLVSQ-----DGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLY   86 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEE--EECCEEE-----TTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcc--cceeeee-----cCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3457899999999999999999999999  6654432     78899999999999999999999999999999999999


Q ss_pred             ccCCCC
Q psy8001         148 YPTRNV  153 (172)
Q Consensus       148 ~a~~~~  153 (172)
                      |+.++.
T Consensus        87 ~a~~k~   92 (96)
T d1fjca_          87 YTGEKG   92 (96)
T ss_dssp             ECSSSC
T ss_pred             EeCCCC
Confidence            998753

>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=99.82  E-value=1.3e-20  Score=120.47  Aligned_cols=79  Identities=15%  Similarity=0.129  Sum_probs=69.4

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEE-EEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFID-VKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~-~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      +..+.|||+|||+.+++++|+++|..||  .+.. +.+..+ .+++++|||||+|.+.++|.+||+.||+..|.||+|+|
T Consensus         7 p~~~~l~v~nLp~~~~~~di~~~F~~~~--~~~~~~~~~~~-~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v   83 (86)
T d2cqpa1           7 PGPTIIKVQNMPFTVSIDEILDFFYGYQ--VIPGSVCLKYN-EKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKL   83 (86)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSC--CCTTTCEEEEC-SSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcc--cceeEEEEEeC-CCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEE
Confidence            3456899999999999999999999999  5544 444444 48999999999999999999999999999999999999


Q ss_pred             ecc
Q psy8001         147 AYP  149 (172)
Q Consensus       147 ~~a  149 (172)
                      +++
T Consensus        84 ~l~   86 (86)
T d2cqpa1          84 VLG   86 (86)
T ss_dssp             EES
T ss_pred             EEC
Confidence            874

>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=99.82  E-value=4.4e-20  Score=122.01  Aligned_cols=80  Identities=18%  Similarity=0.281  Sum_probs=70.8

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecC-CCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENA-SNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~-~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      +.++|||+|||+.+++++|+++|+.||   +..+.++.++ .+++++|||||+|.+.++|++|++ ||+..|+|+.|+|.
T Consensus        14 p~~~v~V~nLp~~~te~~l~~~f~~~g---~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~-~~~~~~~gr~l~V~   89 (104)
T d1wi8a_          14 PPYTAFLGNLPYDVTEESIKEFFRGLN---ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALS-LNEESLGNKRIRVD   89 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSC---EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHG-GGTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhc---cccceeeeeeccCCCcceeeeEEECCHHHHHHHHH-cCCCEECCEEEEEE
Confidence            347999999999999999999999999   5677777665 468899999999999999987775 99999999999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      +|+++
T Consensus        90 ~a~~~   94 (104)
T d1wi8a_          90 VADQA   94 (104)
T ss_dssp             ECCCC
T ss_pred             ECCCC
Confidence            99764

>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=99.81  E-value=5.4e-21  Score=118.27  Aligned_cols=71  Identities=18%  Similarity=0.286  Sum_probs=68.6

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        73 v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      |||+|||+.+++++|+++|++||  .+..+++..++.++.++|||||+|.+.++|++|++.|||..|+|+.|+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G--~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYG--KIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTS--CEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhc--cccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            79999999999999999999999  899999999999999999999999999999999999999999999874

>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=99.81  E-value=1e-20  Score=121.23  Aligned_cols=72  Identities=19%  Similarity=0.289  Sum_probs=66.7

Q ss_pred             eEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccCC
Q psy8001          72 NLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTR  151 (172)
Q Consensus        72 ~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~~  151 (172)
                      +|||+|||+.+++++|+++|++||  .|..++++.+       |||||+|.+.++|+.||+.|||..|.|+.|+|.+++.
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G--~v~~~~i~~~-------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~~   72 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAG--DVCYADVYRD-------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRV   72 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGS--CEEEEEECTT-------SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEE
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhc--cccccccccc-------ceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEec
Confidence            699999999999999999999999  8999987543       7999999999999999999999999999999998864


Q ss_pred             C
Q psy8001         152 N  152 (172)
Q Consensus       152 ~  152 (172)
                      .
T Consensus        73 ~   73 (87)
T d3begb1          73 K   73 (87)
T ss_dssp             E
T ss_pred             C
Confidence            3

>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=99.81  E-value=8.4e-20  Score=117.11  Aligned_cols=78  Identities=17%  Similarity=0.212  Sum_probs=68.9

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee-CCcccEEe
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL-HGRKPMVA  147 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l-~g~~l~v~  147 (172)
                      +..+|||+|||+.+++++|+++|++||  .+..+.+..    ++++|||||+|.+.++|.+|+..|||..| +|+.|+|+
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~G--~v~~~~~~~----~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~   82 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSNG--GVVKGFKFF----QKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVS   82 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTS--CCEEEEEEC----SSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhccC--CEEEEEEee----ecccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEE
Confidence            356899999999999999999999999  787776554    34678999999999999999999999988 58999999


Q ss_pred             ccCCC
Q psy8001         148 YPTRN  152 (172)
Q Consensus       148 ~a~~~  152 (172)
                      ++++.
T Consensus        83 ~sk~~   87 (88)
T d2adca2          83 FSKST   87 (88)
T ss_dssp             ECSSC
T ss_pred             eCCCC
Confidence            99753

>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=99.81  E-value=5.1e-20  Score=117.69  Aligned_cols=77  Identities=23%  Similarity=0.358  Sum_probs=71.1

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||..+++++|+++|++||  .|..+++..+      +|||||+|.+.++|+.|++.|||..|+|+.|+|+|
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~G--~i~~i~~~~~------k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~   78 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKYG--KAGEVFIHKD------KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRF   78 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTC--CCSEEEEETT------TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhC--CceEeeeecc------cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            456899999999999999999999999  8999998754      58999999999999999999999999999999999


Q ss_pred             cCCCC
Q psy8001         149 PTRNV  153 (172)
Q Consensus       149 a~~~~  153 (172)
                      |.+..
T Consensus        79 A~~~~   83 (86)
T d2cpja1          79 ACHSA   83 (86)
T ss_dssp             SSCCS
T ss_pred             CCCcC
Confidence            98653

>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=99.81  E-value=8.4e-20  Score=121.49  Aligned_cols=77  Identities=23%  Similarity=0.245  Sum_probs=70.5

Q ss_pred             cceEEEcCCCC-CCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          70 HCNLYVGNLTW-WTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        70 ~~~v~V~nL~~-~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..+|||+||++ .+++++|+++|+.||  .|..++|++++     +|||||+|.+.++|.+|++.|||..|.|+.|+|++
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG--~I~~v~i~~~~-----kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~   74 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYG--DVQRVKILFNK-----KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITL   74 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHT--CEEEEEECCTT-----SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEEC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhcc--ccceEEEEecc-----cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            46899999965 599999999999999  99999998864     78999999999999999999999999999999999


Q ss_pred             cCCCC
Q psy8001         149 PTRNV  153 (172)
Q Consensus       149 a~~~~  153 (172)
                      ++...
T Consensus        75 s~~~~   79 (109)
T d2adca1          75 SKHQN   79 (109)
T ss_dssp             CSCCC
T ss_pred             CCCCC
Confidence            97543

>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=99.81  E-value=4e-20  Score=121.83  Aligned_cols=82  Identities=15%  Similarity=0.186  Sum_probs=72.8

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ....+.+|||+|||+.+++++|+++|..+|   +..+.++.+. ++..+|||||+|.+.++|++|++ ||+..|+||.|+
T Consensus        11 ~~~~~~~v~v~nLp~~~te~dl~~~F~~~~---~~~v~~~~~~-~g~~~G~afVeF~~~~~a~~Al~-~~~~~i~gR~I~   85 (102)
T d1weza_          11 QSTTGHCVHMRGLPYRATENDIYNFFSPLN---PMRVHIEIGP-DGRVTGEADVEFATHEDAVAAMA-KDKANMQHRYVE   85 (102)
T ss_dssp             CCSSSCEEEEESCCTTCCHHHHHHSSCSCC---CSEEEEEESS-SSCEEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCE
T ss_pred             cCCCCCEEEEeCCCCcCCHHHHHHHHhccC---cceeeeEEec-CCcceEEEEEEECCHHHHHHHHH-cCCCEECCEEEE
Confidence            344567899999999999999999999999   3467777776 78899999999999999999997 899999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.++++.
T Consensus        86 V~~s~~~   92 (102)
T d1weza_          86 LFLNSTA   92 (102)
T ss_dssp             EEEECCC
T ss_pred             EEEcCCC
Confidence            9998764

>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=99.81  E-value=6.9e-20  Score=119.84  Aligned_cols=74  Identities=16%  Similarity=0.278  Sum_probs=67.5

Q ss_pred             CCcceEEEcCCC-CCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          68 SSHCNLYVGNLT-WWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        68 ~~~~~v~V~nL~-~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...++|||+||+ ..+++++|+++|++||  .|..++|        ++|||||+|.+.++|++||+.|||..|+|++|+|
T Consensus        13 ~~~~~lfV~nL~~~~~~~~~L~~~F~~~G--~i~~~~i--------~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V   82 (98)
T d1wf2a_          13 SMNSRVFIGNLNTLVVKKSDVEAIFSKYG--KIVGCSV--------HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDI   82 (98)
T ss_dssp             SCCCCEEEEEECTTTCCHHHHHHSSTTSS--CEEEEEE--------ETEEEEEEESSHHHHHHHHHTTTTCEETTEECEE
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHhhcC--CEEEEEE--------eCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            345679999997 5788999999999999  8999987        4789999999999999999999999999999999


Q ss_pred             eccCC
Q psy8001         147 AYPTR  151 (172)
Q Consensus       147 ~~a~~  151 (172)
                      +++++
T Consensus        83 ~~a~~   87 (98)
T d1wf2a_          83 NLAAE   87 (98)
T ss_dssp             EETTS
T ss_pred             EECCC
Confidence            99975

>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=99.80  E-value=1.7e-19  Score=119.20  Aligned_cols=83  Identities=11%  Similarity=0.082  Sum_probs=73.3

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ......|||+|||+.+++++|+++|..+|  .+....++.+..+++++|||||+|.+.++|++|++ +|+..|+||.|+|
T Consensus        12 ~~~~~~v~v~nLP~~~te~dI~~~F~~~g--~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~~~~~i~gR~i~V   88 (104)
T d1wg5a_          12 TANDGFVRLRGLPFGCSKEEIVQFFSGLE--IVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALK-KHKERIGHRYIEI   88 (104)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHTTTCC--EEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHT-TTTCCSSSSCCEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC--CceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-hCCCEEcceEEEE
Confidence            33445799999999999999999999999  67766666666689999999999999999999997 8999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      .++++.
T Consensus        89 ~~~~~~   94 (104)
T d1wg5a_          89 FKSSRA   94 (104)
T ss_dssp             EEECTT
T ss_pred             EECCHH
Confidence            999754

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=2.3e-20  Score=120.10  Aligned_cols=76  Identities=14%  Similarity=0.157  Sum_probs=69.6

Q ss_pred             cceEEEcCCCCCCCHHHH---HHHHHhcCCCCeEEEEEEecCCCCCc---ccEEEEEeCCHHHHHHHHHHCCCceeCCcc
Q psy8001          70 HCNLYVGNLTWWTTEADM---SDAIRSIGVPDFIDVKFFENASNGQS---KGFCTVTLGSEESMSLVMERLPTLELHGRK  143 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l---~~~f~~~g~~~~~~~~i~~~~~~g~~---~g~afv~f~~~~~a~~al~~l~g~~l~g~~  143 (172)
                      ...|||+|||+.+++++|   +++|++||  .|..+.++.++.++.+   +|||||+|.+.++|++|++.|||..++|+.
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~~G--~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~   85 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGKFG--KIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRT   85 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTTS--CEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhcccC--CceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEE
Confidence            457999999999999999   67899999  9999999999876654   489999999999999999999999999999


Q ss_pred             cEEe
Q psy8001         144 PMVA  147 (172)
Q Consensus       144 l~v~  147 (172)
                      |+|+
T Consensus        86 lkvS   89 (89)
T d2cpia1          86 LKAS   89 (89)
T ss_dssp             EEEE
T ss_pred             EEEC
Confidence            9985

>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=99.80  E-value=1.5e-19  Score=112.63  Aligned_cols=74  Identities=11%  Similarity=0.115  Sum_probs=67.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ++|||+|||+.+++++|+++|+.||  .|..++++.++..  .+|||||+|.+.++|++||. +|+..|+|+.|.|+.+
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G--~I~~v~~~~~~~~--~~~~afV~F~~~~~a~~Al~-~~~~~i~g~~i~V~~~   74 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCG--PIIHVDVADSLKK--NFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGS--CEEEEEEEECTTS--SSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCC--ceEEEEEEeeccc--cceEEEEEEcchHHhHHHHH-hcCcEECCEEEEEEEC
Confidence            4799999999999999999999999  9999999998743  45799999999999999996 8999999999999865

>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=99.80  E-value=1.8e-20  Score=123.67  Aligned_cols=86  Identities=19%  Similarity=0.184  Sum_probs=72.8

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ...+|||+|||+.+++++|+++|..+|  .+..+.++.+..+|+++|||||+|.+.++|++||+ |||..|+|+.|.|.+
T Consensus         7 ~~~~v~v~nLp~~~t~~~l~~~F~~~g--~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~~   83 (103)
T d2cpya1           7 AKVCAHITNIPFSITKMDVLQFLEGIP--VDENAVHVLVDNNGQGLGQALVQFKNEDDARKSER-LHRKKLNGREAFVHV   83 (103)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTSC--CCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEEE
T ss_pred             CceEEEEeCCCCCCCHHHHhhhhcccc--eEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEEE
Confidence            346799999999999999999999999  66554444455589999999999999999999997 899999999999999


Q ss_pred             cCCCCcchh
Q psy8001         149 PTRNVLYQF  157 (172)
Q Consensus       149 a~~~~~~~~  157 (172)
                      +......+.
T Consensus        84 ~~~~~~~~~   92 (103)
T d2cpya1          84 VTLEDMREI   92 (103)
T ss_dssp             ECHHHHHHH
T ss_pred             CCHHHhhhh
Confidence            865444333

>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=99.79  E-value=2.6e-19  Score=114.28  Aligned_cols=75  Identities=20%  Similarity=0.144  Sum_probs=67.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      .+|||+|||+.+++++|+++|++||  .+..+.+.      +++|||||+|.+.++|..|+..|||..|+|+.|+|+||+
T Consensus         9 k~l~V~nLp~~~te~~l~~~F~~~g--~i~~~~~~------~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~ak   80 (86)
T d2cpda1           9 KILYVRNLMLSTSEEMIEKEFNNIK--PGAVERVK------KIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK   80 (86)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHTTS--TTCEEEEE------ECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCC
T ss_pred             CEEEEcCCCCCCCHHHHHHhhcccc--eeeeEEEc------cccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEecc
Confidence            5899999999999999999999999  66665542      357899999999999999999999999999999999998


Q ss_pred             CCC
Q psy8001         151 RNV  153 (172)
Q Consensus       151 ~~~  153 (172)
                      |+.
T Consensus        81 P~~   83 (86)
T d2cpda1          81 PVD   83 (86)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            653

>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=99.79  E-value=1.5e-19  Score=113.67  Aligned_cols=75  Identities=19%  Similarity=0.196  Sum_probs=68.1

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      .+.+|||+|++  +++++|+++|++||  .|..+++..      .+|||||+|.+.++|..|++.|||..++|++|+|+|
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~G--~I~~v~~~~------~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~   73 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPFG--NIIDLSMDP------PRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNI   73 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTTC--CCSCEEEET------TTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEE
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhccC--ccceeeecc------CCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEE
Confidence            35689999996  89999999999999  899998864      368999999999999999999999999999999999


Q ss_pred             cCCCC
Q psy8001         149 PTRNV  153 (172)
Q Consensus       149 a~~~~  153 (172)
                      +++++
T Consensus        74 a~~~P   78 (79)
T d2bz2a1          74 ARKQP   78 (79)
T ss_dssp             CCSSC
T ss_pred             ecCCC
Confidence            98764

>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=99.79  E-value=7.3e-20  Score=118.13  Aligned_cols=78  Identities=12%  Similarity=0.249  Sum_probs=70.1

Q ss_pred             cceEEEcCCCCCCCHHHHHH----HHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          70 HCNLYVGNLTWWTTEADMSD----AIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        70 ~~~v~V~nL~~~~~~~~l~~----~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      ..+|||+|||+.+++++|++    +|++||  .|..+++..   ++.++|||||+|.+.++|..|++.|||..++|+.|+
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G--~i~~i~~~~---~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~   77 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFG--QILDILVSR---SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMR   77 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGS--CEEEEECCH---HHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccc--cccceEEee---eccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            46899999999999998864    579999  898887644   567899999999999999999999999999999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.||+..
T Consensus        78 v~~ak~~   84 (91)
T d1nu4a_          78 IQYAKTD   84 (91)
T ss_dssp             EEECSSC
T ss_pred             EEEeCCC
Confidence            9999864

>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=99.79  E-value=1.2e-19  Score=121.13  Aligned_cols=76  Identities=13%  Similarity=0.086  Sum_probs=69.5

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++||  .|..|.|.      ..+|||||+|.+.++|.+|++.|||..|.|+.|.|+|
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~fG--~I~~v~l~------~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~   80 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRFG--SLGRVLLP------EGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEW   80 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTS--CEEEEECC------SSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhccC--CccEEEee------ccCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEE
Confidence            456899999999999999999999999  89998873      3578999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      +...
T Consensus        81 a~~~   84 (111)
T d1whxa_          81 APIG   84 (111)
T ss_dssp             EETT
T ss_pred             CCCC
Confidence            9753

>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=99.79  E-value=8.6e-20  Score=115.08  Aligned_cols=74  Identities=23%  Similarity=0.282  Sum_probs=65.8

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCc-eeCCcccEEecc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTL-ELHGRKPMVAYP  149 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~-~l~g~~l~v~~a  149 (172)
                      .+|||+|||..+++++|+++|++||  .+..+.++.      .+|||||+|.+.++|+.|++.|||. .++|+.|+|++|
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G--~i~~~~~~~------~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a   73 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRK--LPLAGQVLL------KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYS   73 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTT--CCCSSCEEE------ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhC--cEEEeEEec------ccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEc
Confidence            4799999999999999999999999  666555543      4789999999999999999999996 699999999999


Q ss_pred             CCC
Q psy8001         150 TRN  152 (172)
Q Consensus       150 ~~~  152 (172)
                      .++
T Consensus        74 ~~k   76 (80)
T d2cqha1          74 VSK   76 (80)
T ss_dssp             CCC
T ss_pred             CCc
Confidence            864

>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=99.79  E-value=1.4e-19  Score=120.30  Aligned_cols=80  Identities=11%  Similarity=0.073  Sum_probs=72.5

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee--CCcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL--HGRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l--~g~~l~  145 (172)
                      .....|||+||++.+++++|+++|++||  .|..+.++.++    .+|||||+|.+.++|+.|++.|||..|  .|++|+
T Consensus         5 s~~~~v~V~NL~~~vte~~L~~~F~~~G--~i~~~~i~~~~----~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~   78 (108)
T d2adba1           5 SPVLRIIVENLFYPVTLDVLHQIFSKFG--TVLKIITFTKN----NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLR   78 (108)
T ss_dssp             CCEEEEESCSCCSTTHHHHHHHHHTTTS--CEEEEEEEEET----TEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCE
T ss_pred             CCeEEEEEeCcCCCCCHHHHHHHHccCC--cEEEEEEEeeC----CCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEE
Confidence            3456899999999999999999999999  99999998875    579999999999999999999999988  578999


Q ss_pred             EeccCCCC
Q psy8001         146 VAYPTRNV  153 (172)
Q Consensus       146 v~~a~~~~  153 (172)
                      |.++++..
T Consensus        79 v~~s~~~~   86 (108)
T d2adba1          79 IDFSKLTS   86 (108)
T ss_dssp             EEECSSCS
T ss_pred             EEecCCcc
Confidence            99998754

>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=99.78  E-value=4e-19  Score=116.13  Aligned_cols=75  Identities=19%  Similarity=0.240  Sum_probs=68.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEe
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVA  147 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~  147 (172)
                      ...++|||+|||+.+++++|+++|++||  .|..+.+..       +|||||+|.+.++|++||+.|||..|.|+.|+|.
T Consensus        13 ~~~~~i~V~Nlp~~~~~~~L~~~F~~~G--~v~~~~i~~-------~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~   83 (98)
T d1wg4a_          13 RSDFRVLVSGLPPSGSWQDLKDHMREAG--DVCYADVQK-------DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETS   83 (98)
T ss_dssp             SCSCEEEEECCCSSCCHHHHHHHHTTSS--CEEEEEEET-------TTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhhc--ccccccccc-------cceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEE
Confidence            3456899999999999999999999999  899988743       5899999999999999999999999999999999


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      +++.
T Consensus        84 ~~~~   87 (98)
T d1wg4a_          84 YIRV   87 (98)
T ss_dssp             EEEE
T ss_pred             EEec
Confidence            9864

>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=99.78  E-value=3.5e-19  Score=110.90  Aligned_cols=71  Identities=17%  Similarity=0.159  Sum_probs=64.1

Q ss_pred             EEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccCCC
Q psy8001          73 LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPTRN  152 (172)
Q Consensus        73 v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~~~  152 (172)
                      |||+|||+.+++++|+++|.+||   +..+.+      ++++|||||+|.+.++|++|++.|||..+.|++|+|++++..
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g---~~~~~~------~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~d   71 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE---LKYCFV------DKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPTD   71 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC---EEEEEE------ETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCST
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc---ccceee------cccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCCC
Confidence            79999999999999999999999   444443      346899999999999999999999999999999999999764

>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=99.77  E-value=5.7e-20  Score=123.06  Aligned_cols=83  Identities=14%  Similarity=0.150  Sum_probs=72.5

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      ...+++|||+|||+.+++++|+++|+.+|  .+..+.++.+..+|.++|||||+|.+.++|++|++ |||..|+||.|.|
T Consensus        15 ~~~~~~i~v~nLp~~~t~~di~~~F~~~g--~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~~~~~i~gR~i~V   91 (112)
T d1wela1          15 HEAGFCVYLKGLPFEAENKHVIDFFKKLD--IVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQV   91 (112)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHSCSSC--BCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEE
T ss_pred             CCCCeEEEEecCCCcCcHHHHhhHHhhcc--ccccceeeecCcccceeeEEEEEECCHHHHHHHHH-cCCCcCCCEEEEE
Confidence            33567899999999999999999999999  66555555566699999999999999999999997 8999999999999


Q ss_pred             eccCCC
Q psy8001         147 AYPTRN  152 (172)
Q Consensus       147 ~~a~~~  152 (172)
                      ..+.+.
T Consensus        92 ~~~~~~   97 (112)
T d1wela1          92 HPITKK   97 (112)
T ss_dssp             EEECHH
T ss_pred             EEcChH
Confidence            988643

>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=99.77  E-value=1.4e-19  Score=116.16  Aligned_cols=75  Identities=19%  Similarity=0.262  Sum_probs=67.2

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ..++|||+|||+.+++++|+++|++||  .+..+++.     ..++|||||+|.+.++|++||.  ++..|+|++|+|++
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~G--~v~~v~~~-----~~~~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~   74 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQYG--DVMDVFIP-----KPFRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISN   74 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTS--CCCEEECC-----SSCCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcC--CceEEEEe-----eccCceEEEEECCHHHHHHHHh--CCCEECCEEeEEEe
Confidence            456999999999999999999999999  88888763     4468999999999999999985  88999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      ++++
T Consensus        75 a~~k   78 (88)
T d1wf0a_          75 AEPK   78 (88)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            9754

>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=99.77  E-value=3.1e-19  Score=114.44  Aligned_cols=75  Identities=15%  Similarity=0.182  Sum_probs=65.6

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEec
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAY  148 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~  148 (172)
                      ...+|||+|||+.+++++|+++|.+||+   ..+.+      +..+|||||+|.+.++|++|++.|||..|+|++|+|++
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G~---~~~~~------~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~   74 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYDL---KYCYV------DRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQL   74 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSCC---CCEEE------EGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcCc---eeeee------eccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            3468999999999999999999999993   22222      34689999999999999999999999999999999999


Q ss_pred             cCCC
Q psy8001         149 PTRN  152 (172)
Q Consensus       149 a~~~  152 (172)
                      ++..
T Consensus        75 a~~~   78 (88)
T d1wg1a_          75 QPTD   78 (88)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            9754

>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=99.76  E-value=2e-18  Score=112.58  Aligned_cols=77  Identities=17%  Similarity=0.288  Sum_probs=69.5

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCC--cccEE
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHG--RKPMV  146 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g--~~l~v  146 (172)
                      +.++|||+|||+.+++++|+++|++||  .|..++++++      ++||||+|.+.++|+.|++.||+..|.|  ++|+|
T Consensus        16 Ps~tl~V~nLp~~~t~~~l~~~f~~~G--~i~~~~~~~~------~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v   87 (97)
T d1whya_          16 PTTRLWVGGLGPNTSLAALAREFDRFG--SIRTIDHVKG------DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRV   87 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTS--CEEEEEECSS------SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEE
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhhc--ccceEeeecc------ccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEE
Confidence            456899999999999999999999999  8999988653      5799999999999999999999999987  58999


Q ss_pred             eccCCCC
Q psy8001         147 AYPTRNV  153 (172)
Q Consensus       147 ~~a~~~~  153 (172)
                      +|+++.+
T Consensus        88 ~~ak~~~   94 (97)
T d1whya_          88 DFAKSGP   94 (97)
T ss_dssp             EECCCCC
T ss_pred             EeCCCCC
Confidence            9998643

>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=99.75  E-value=3.9e-18  Score=109.20  Aligned_cols=80  Identities=15%  Similarity=0.177  Sum_probs=70.8

Q ss_pred             CCCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHC--CCceeCCcc
Q psy8001          66 TSSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL--PTLELHGRK  143 (172)
Q Consensus        66 ~~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l--~g~~l~g~~  143 (172)
                      +..+..+|||+|||..+++++|+++|++||  .+..+++..+      +|||||+|.+.++|++|++.|  ++..+.|+.
T Consensus         4 ~~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G--~i~~v~~~~~------~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~   75 (88)
T d2cq1a1           4 DGAPSRVLHIRKLPGEVTETEVIALGLPFG--KVTNILMLKG------KNQAFLELATEEAAITMVNYYSAVTPHLRNQP   75 (88)
T ss_dssp             CSSCCSEEEEESCCTTCCHHHHHHTTTTTS--CEEEEEEETT------TTEEEEEESSHHHHHHHHHHHHHSCCEETTEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhccc--cccccccccc------ceEEEEEeCCHHHHHHHHHHHccCCCccCCCE
Confidence            345667999999999999999999999999  8999988654      579999999999999999865  577999999


Q ss_pred             cEEeccCCCC
Q psy8001         144 PMVAYPTRNV  153 (172)
Q Consensus       144 l~v~~a~~~~  153 (172)
                      |+|++++.+.
T Consensus        76 l~v~~sk~~~   85 (88)
T d2cq1a1          76 IYIQYSNHKE   85 (88)
T ss_dssp             CEEEECSCSS
T ss_pred             EEEEECCCCC
Confidence            9999998754

>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=99.72  E-value=2.4e-17  Score=118.45  Aligned_cols=82  Identities=17%  Similarity=0.281  Sum_probs=76.5

Q ss_pred             CCCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEE
Q psy8001          67 SSSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMV  146 (172)
Q Consensus        67 ~~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v  146 (172)
                      .....+|||+|||+.+++++|+++|+.||  .+..+.|+.++.+|.++|||||+|.+.++|.+||+ +++..|+|++|+|
T Consensus        94 ~~~~~~i~V~~lp~~~te~~L~~~f~~~G--~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~-~~~~~~~G~~i~V  170 (183)
T d1u1qa_          94 HLTVKKIFVGGIKEDTEEHHLRDYFEQYG--KIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEV  170 (183)
T ss_dssp             TCCCSEEEEECCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHT-SSCEEETTEEEEE
T ss_pred             ccccceeEEccCCCcCCHHHHhhhhccCC--ceeeeeeecccccCccceeEEEEECCHHHHHHHHH-hCCCeECCEEEEE
Confidence            34456899999999999999999999999  89999999999899999999999999999999997 7999999999999


Q ss_pred             eccCC
Q psy8001         147 AYPTR  151 (172)
Q Consensus       147 ~~a~~  151 (172)
                      .+|.+
T Consensus       171 ~~A~~  175 (183)
T d1u1qa_         171 RKALS  175 (183)
T ss_dssp             EECCC
T ss_pred             EecCC
Confidence            99865

>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=99.72  E-value=8.8e-18  Score=110.77  Aligned_cols=81  Identities=15%  Similarity=0.104  Sum_probs=70.1

Q ss_pred             CCcceEEEcCCCCCC-CH----HHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc
Q psy8001          68 SSHCNLYVGNLTWWT-TE----ADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR  142 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~-~~----~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~  142 (172)
                      ....+|||+||+..+ ++    ++|+++|+.||  .+..++++.      ++|||||+|.+.++|.+|++.|||..|+|+
T Consensus         3 ~~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G--~i~~~~~~k------~~~~afV~f~~~~~A~~Ai~~lng~~~~g~   74 (104)
T d1weya_           3 SGSSGLIACVANDDVFSESETRAKFESLFRTYD--KDTTFQYFK------SFKRVRINFSNPLSAADARLRLHKTEFLGK   74 (104)
T ss_dssp             SCCCEEEEECCCGGGGSTTTHHHHHHHHHHTTC--SSCEEEEET------TTTEEEEECSSTTHHHHHHHTSTTSEETTE
T ss_pred             CCCceEEEEeCCchhcCcHHHHHHHHHHhcccc--cceEEEEec------CCCEEEEEECCHHHHHHHHHHhcccccCCC
Confidence            345789999999876 33    56899999999  899998864      468999999999999999999999999999


Q ss_pred             ccEEeccCCCCcch
Q psy8001         143 KPMVAYPTRNVLYQ  156 (172)
Q Consensus       143 ~l~v~~a~~~~~~~  156 (172)
                      .|+|.|+++.....
T Consensus        75 ~l~v~~a~~~~~~~   88 (104)
T d1weya_          75 EMKLYFAQTLHIGS   88 (104)
T ss_dssp             ECEEECCCCSSCCS
T ss_pred             EeEEeecccCCCCC
Confidence            99999998765444

>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=99.71  E-value=1.8e-19  Score=115.96  Aligned_cols=78  Identities=21%  Similarity=0.269  Sum_probs=66.4

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEE-----EecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccE
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKF-----FENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPM  145 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i-----~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~  145 (172)
                      .+|||+|||+.+++++|+++|+++|  .+..+.+     +.+..+++++|||||+|.+.++|++|++ |||..+.|+.|+
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g--~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l~   78 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQM--RLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLK   78 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHH--TTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSSSCCC
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhC--cEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECCEEEE
Confidence            4799999999999999999999998  5443332     3455577889999999999999999996 999999999999


Q ss_pred             EeccCC
Q psy8001         146 VAYPTR  151 (172)
Q Consensus       146 v~~a~~  151 (172)
                      |+.++.
T Consensus        79 V~r~k~   84 (90)
T d1u2fa_          79 IRRPHD   84 (90)
T ss_dssp             CBCTTC
T ss_pred             ECCCCC
Confidence            986653

>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=99.71  E-value=5.4e-17  Score=106.93  Aligned_cols=77  Identities=19%  Similarity=0.191  Sum_probs=68.7

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHC--CCceeCCcccE
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL--PTLELHGRKPM  145 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l--~g~~l~g~~l~  145 (172)
                      .+...|||+|||..+++++|+++|++||  .|..+.+.+      .+|||||+|.+.++|+.|+..|  ++..+.|++|+
T Consensus        13 ~ps~~l~v~nlp~~~te~~l~~~F~~fG--~I~~~~~~~------~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~   84 (104)
T d1wexa_          13 SVSPVVHVRGLCESVVEADLVEALEKFG--TICYVMMMP------FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAF   84 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTS--CEEEEEEET------TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHhhhhcc--cceEEEEEe------cceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEE
Confidence            3456899999999999999999999999  899998865      3689999999999999999987  55678999999


Q ss_pred             EeccCCC
Q psy8001         146 VAYPTRN  152 (172)
Q Consensus       146 v~~a~~~  152 (172)
                      |.+++.+
T Consensus        85 v~~s~~~   91 (104)
T d1wexa_          85 FNYSTSK   91 (104)
T ss_dssp             EEECSSS
T ss_pred             EEEcCCC
Confidence            9999764

>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=99.70  E-value=3.4e-17  Score=107.01  Aligned_cols=77  Identities=12%  Similarity=0.125  Sum_probs=68.1

Q ss_pred             CCcceEEEcCCCCC-CCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHH--HCCCceeCCccc
Q psy8001          68 SSHCNLYVGNLTWW-TTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVME--RLPTLELHGRKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~~-~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~--~l~g~~l~g~~l  144 (172)
                      ..+++|||+|||.. +++++|.++|++||  .|..+.++.+      +|||||+|.+.++|.+|++  .+++..++|+.|
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG--~V~~v~~~~~------k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l   87 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYG--KIKNYILMRM------KSQAFIEMETREDAMAMVDHCLKKALWFQGRCV   87 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTS--CCSEEEEETT------TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCC
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhcccc--ceeEEEEeec------CCcEEEEecchHHHHHHHHHHhcCCceECCEEE
Confidence            34578999999974 89999999999999  8999998754      5899999999999999997  478889999999


Q ss_pred             EEeccCCC
Q psy8001         145 MVAYPTRN  152 (172)
Q Consensus       145 ~v~~a~~~  152 (172)
                      +|++|+..
T Consensus        88 ~V~~s~~~   95 (99)
T d1x4fa1          88 KVDLSEKY   95 (99)
T ss_dssp             EEEEECSC
T ss_pred             EEEEcCCc
Confidence            99999643

>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=99.66  E-value=1.4e-16  Score=101.98  Aligned_cols=76  Identities=5%  Similarity=0.086  Sum_probs=67.6

Q ss_pred             CCcceEEEcCCCCC-CCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHC--CCceeCCccc
Q psy8001          68 SSHCNLYVGNLTWW-TTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERL--PTLELHGRKP  144 (172)
Q Consensus        68 ~~~~~v~V~nL~~~-~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l--~g~~l~g~~l  144 (172)
                      .....|||+|||.. +++++|.++|++||  .|..+.++.+      +++|||+|.+.++|..|++.|  ++..+.|++|
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~fG--~I~~i~i~~~------k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l   77 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPFG--VISNHLILNK------INEAFIEMATTEDAQAAVDYYTTTPALVFGKPV   77 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGS--CEEEEEECSS------SSCEEEEESSHHHHHHHHHHHHHSCCEETTEEC
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhhC--CeEEEEeecc------ceEEEEEEcchhhHHHHHHHHhhCCCccCCceE
Confidence            34568999999986 78999999999999  9999998764      469999999999999999966  6779999999


Q ss_pred             EEeccCC
Q psy8001         145 MVAYPTR  151 (172)
Q Consensus       145 ~v~~a~~  151 (172)
                      +|+||++
T Consensus        78 ~V~~s~~   84 (89)
T d1x4da1          78 RVHLSQK   84 (89)
T ss_dssp             EEEEECC
T ss_pred             EEEECCC
Confidence            9999975

>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=99.65  E-value=1.2e-17  Score=110.14  Aligned_cols=76  Identities=12%  Similarity=0.075  Sum_probs=71.1

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEecc
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYP  149 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a  149 (172)
                      ..++|.++...++|++|+++|++||  .|.+++|+++. +|.++|||||+|.+.++|.+|++.|||..++||+|+|+++
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G--~I~~v~I~~~~-~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYG--EVEEMNVCDNL-GDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTC--CEEEEEECCSS-SSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCC--CEEEEEeecCC-CCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            4588889999999999999999999  99999998775 8999999999999999999999999999999999999986

>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=99.59  E-value=2.2e-15  Score=100.54  Aligned_cols=77  Identities=13%  Similarity=0.106  Sum_probs=66.4

Q ss_pred             CCCcce-EEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCH-HHHHHHHHHCCCceeCCccc
Q psy8001          67 SSSHCN-LYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSE-ESMSLVMERLPTLELHGRKP  144 (172)
Q Consensus        67 ~~~~~~-v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~-~~a~~al~~l~g~~l~g~~l  144 (172)
                      ...++. +|||||++.+|+++|+++|++||  .|..|.|+.+      +|||||.|.+. ++|..|+..||+..+.++.+
T Consensus         7 ~~~g~~~~fvgnL~~~~tee~Lk~~F~~fG--~V~~v~i~~~------kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~   78 (113)
T d1owxa_           7 EKIGCLLKFSGDLDDQTCREDLHILFSNHG--EIKWIDFVRG------AKEGIILFKEKAKEALGKAKDANNGNLQLRNK   78 (113)
T ss_dssp             CCCCCEEEEEESCCSSCCHHHHHHHTCSSC--CEEEEECCTT------CSEEEEEESSCHHHHHHHHHHTTTSCBCTTSS
T ss_pred             CCCCCeEEEECCCCCCCCHHHHHHHHHhcC--ChheEEEecC------CceEEEEecCcHHHHHHHHHHhcCCceecCce
Confidence            334444 59999999999999999999999  9999998753      68999999985 68889999999999999888


Q ss_pred             EEeccCC
Q psy8001         145 MVAYPTR  151 (172)
Q Consensus       145 ~v~~a~~  151 (172)
                      .|.++..
T Consensus        79 ~v~~~~~   85 (113)
T d1owxa_          79 EVTWEVL   85 (113)
T ss_dssp             SEEEEEC
T ss_pred             EEEEeec
Confidence            8887754

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=8.3e-15  Score=104.91  Aligned_cols=79  Identities=20%  Similarity=0.349  Sum_probs=72.6

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      ++|||+|||+.+++++|+++|++||  .|..+.++.+..++.++|||||+|.+.++|++|+. +++..+.++.+.+....
T Consensus         7 r~lfV~nLp~~~te~~L~~~F~~~G--~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~-~~~~~~~~~~~~~~~~~   83 (183)
T d1u1qa_           7 RKLFIGGLSFETTDESLRSHFEQWG--TLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRAV   83 (183)
T ss_dssp             HEEEEESCCTTCCHHHHHHHHGGGS--CEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHcC--CEEEEEeeecccCCCccCceecccCCHHHHHHHHH-hcCCcccccchhhhhhh
Confidence            5899999999999999999999999  99999999999999999999999999999999998 57788888888887765


Q ss_pred             CC
Q psy8001         151 RN  152 (172)
Q Consensus       151 ~~  152 (172)
                      ..
T Consensus        84 ~~   85 (183)
T d1u1qa_          84 SR   85 (183)
T ss_dssp             CT
T ss_pred             hc
Confidence            43

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=1.3e-14  Score=94.85  Aligned_cols=68  Identities=13%  Similarity=0.049  Sum_probs=58.1

Q ss_pred             CCcceEEEc--CCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCcee-CCcc
Q psy8001          68 SSHCNLYVG--NLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLEL-HGRK  143 (172)
Q Consensus        68 ~~~~~v~V~--nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l-~g~~  143 (172)
                      .++.+|+|+  ||+..+++++|+++|++||  .+..+.++.+      +|||||+|.+.++|+.|++.|||..| .+..
T Consensus        16 ~pt~~l~V~ng~L~~~vte~~L~~~F~~~G--~i~~i~~~~~------k~~aFV~f~~~e~A~~A~~~lng~~i~~~~~   86 (101)
T d2cq2a1          16 YATQSLVVANGGLGNGVSRNQLLPVLEKCG--LVDALLMPPN------KPYSFARYRTTEESKRAYVTLNGKEVVDDLG   86 (101)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHS--CEEEEECCTT------CSCEEEEESSHHHHHHHHHHTTTCEEECTTS
T ss_pred             CCCceEEEECCCCCCCCCHHHHHHHHHhhC--cccEEeeccC------ccEEEEEECCHHHHHHHHHHhCCCCCCCCCC
Confidence            345678885  4999999999999999999  8999887653      57999999999999999999999977 4443

>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=99.51  E-value=3.2e-14  Score=89.15  Aligned_cols=73  Identities=5%  Similarity=-0.089  Sum_probs=61.8

Q ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCc-ccEEe
Q psy8001          69 SHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGR-KPMVA  147 (172)
Q Consensus        69 ~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~-~l~v~  147 (172)
                      +.+.|+|+++|+..+++.| .+|++||  .|.++++.      +.+|||||+|.+.++|++||+ +||..|+|+ .|.|.
T Consensus         3 ~~~wV~V~G~p~~~~~~il-~~F~~~G--~I~~~~~~------~~~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~vgV~   72 (81)
T d1wwha1           3 DDTWVTVFGFPQASASYIL-LQFAQYG--NILKHVMS------NTGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVK   72 (81)
T ss_dssp             GGGEEEEECCCGGGHHHHH-HHHHTTS--CEEEEEEC------SSSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEE
T ss_pred             cccEEEEECCChHHHHHHH-HHHHhhh--hhheEEec------CCCCEEEEEEcccHHHHHHHh-cCCCeECCcEEEEEE
Confidence            3467999999999987655 5799999  89988763      357899999999999999997 899999998 56788


Q ss_pred             ccCC
Q psy8001         148 YPTR  151 (172)
Q Consensus       148 ~a~~  151 (172)
                      .+..
T Consensus        73 ~~~~   76 (81)
T d1wwha1          73 PCID   76 (81)
T ss_dssp             ECCC
T ss_pred             eCCC
Confidence            7754

>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=99.50  E-value=5.7e-14  Score=91.33  Aligned_cols=80  Identities=13%  Similarity=0.176  Sum_probs=66.6

Q ss_pred             CCcceEEEcCC--CCCC---------CHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCC
Q psy8001          68 SSHCNLYVGNL--TWWT---------TEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPT  136 (172)
Q Consensus        68 ~~~~~v~V~nL--~~~~---------~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g  136 (172)
                      .....|+|.||  +..+         .+++|+..|++||  .|..+.+..+    ..+|||||+|.+.++|.+|+..|||
T Consensus         6 ~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G--~V~~v~~~~~----~~~G~~fV~f~~~e~A~~A~~~lng   79 (99)
T d2dita1           6 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFG--QIRKLLLFDR----HPDGVASVSFRDPEEADYCIQTLDG   79 (99)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTS--CCSEEEEETT----CTTCEEEEECSCHHHHHHHHHHSTT
T ss_pred             CCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcc--cEEEEeccCC----CCccEEEEEECCHHHHHHHHHHhCC
Confidence            44568999998  4432         1357889999999  8889887654    3579999999999999999999999


Q ss_pred             ceeCCcccEEeccCCCC
Q psy8001         137 LELHGRKPMVAYPTRNV  153 (172)
Q Consensus       137 ~~l~g~~l~v~~a~~~~  153 (172)
                      ..++||+|+|++..+..
T Consensus        80 ~~~~gr~i~v~~~~g~~   96 (99)
T d2dita1          80 RWFGGRQITAQAWDGTT   96 (99)
T ss_dssp             CEETTEECEEEECCSCC
T ss_pred             cEECCEEEEEEEeCCcC
Confidence            99999999999987543

>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=99.39  E-value=2.8e-13  Score=88.77  Aligned_cols=81  Identities=15%  Similarity=0.042  Sum_probs=67.5

Q ss_pred             CcceEEEcCC--CCCCC--------HHHHHHHHHhcCCCCeEEEEEEecCCCC--CcccEEEEEeCCHHHHHHHHHHCCC
Q psy8001          69 SHCNLYVGNL--TWWTT--------EADMSDAIRSIGVPDFIDVKFFENASNG--QSKGFCTVTLGSEESMSLVMERLPT  136 (172)
Q Consensus        69 ~~~~v~V~nL--~~~~~--------~~~l~~~f~~~g~~~~~~~~i~~~~~~g--~~~g~afv~f~~~~~a~~al~~l~g  136 (172)
                      +...|.+.||  +....        .++|++.|++||  .|..+.|.++..+.  ...|++||+|.+.++|.+|+..|||
T Consensus         3 Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G--~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~G   80 (104)
T d1o0pa_           3 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYG--LVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTG   80 (104)
T ss_dssp             CCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTS--CEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSS
T ss_pred             CCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccC--ceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCC
Confidence            4567999998  43332        357899999999  99999998876443  3468999999999999999999999


Q ss_pred             ceeCCcccEEeccCC
Q psy8001         137 LELHGRKPMVAYPTR  151 (172)
Q Consensus       137 ~~l~g~~l~v~~a~~  151 (172)
                      ..++||.|.|.+...
T Consensus        81 r~f~gR~v~v~f~~~   95 (104)
T d1o0pa_          81 RKFANRVVVTKYCDP   95 (104)
T ss_dssp             CCSSSSCCEEEEECH
T ss_pred             CEECCeEEEEEEcCH
Confidence            999999999999853

>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=97.73  E-value=7.3e-05  Score=46.37  Aligned_cols=69  Identities=12%  Similarity=0.182  Sum_probs=58.2

Q ss_pred             ceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCC--cccEEEEEeCCHHHHHHHHHHCCCceeCC
Q psy8001          71 CNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQ--SKGFCTVTLGSEESMSLVMERLPTLELHG  141 (172)
Q Consensus        71 ~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~--~~g~afv~f~~~~~a~~al~~l~g~~l~g  141 (172)
                      ++|-|+.||+..+|+++.+.+...|  .+........+.+.+  ...-|||.|.+.++.....+.++|..+.+
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~--~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D   72 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMP--EHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCC--CEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcC--ceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEc
Confidence            4789999999999999999999888  777777776655543  24679999999999999999999998755

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.72  E-value=4.7e-05  Score=46.86  Aligned_cols=55  Identities=18%  Similarity=0.344  Sum_probs=47.0

Q ss_pred             HHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          85 ADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        85 ~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      .+|.+.|..||  .+.-++++.+        --.|+|.+..+|.+|+. ++|..++|+.|+|....
T Consensus        39 ~~Llq~l~~~G--eViLvRFv~d--------~mwVTF~dG~SAL~al~-l~g~~v~G~~l~It~~~   93 (95)
T d1ufwa_          39 TELMQTLGSYG--TIVLVRINQG--------QMLVTFADSHSALSVLD-VDGMKVKGRAVKISGPS   93 (95)
T ss_dssp             HHHHHHHHHHS--CCSEEEEETT--------EEEEECSCSHHHHHHHH-GGGSEETTEEEEEECCC
T ss_pred             HHHHHHHhhCC--eEEEEEEeCC--------eEEEEECCcHHHHHHhc-cCCeEEcceEEEEecCC
Confidence            46778899999  7778887665        56899999999999998 79999999999998653

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.69  E-value=0.00014  Score=42.57  Aligned_cols=60  Identities=13%  Similarity=0.156  Sum_probs=50.6

Q ss_pred             HHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCCCceeCCcccEEeccC
Q psy8001          86 DMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLPTLELHGRKPMVAYPT  150 (172)
Q Consensus        86 ~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~g~~l~g~~l~v~~a~  150 (172)
                      .|.+.|.+++  .+.++.+.... .  ..-.|-|...+.++|.-|+..||...|++++|.|+++.
T Consensus        12 ~L~~~f~~h~--~V~sv~l~~~~-d--g~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1          12 LLQEAFARHG--KVKSVELSPHT-D--YQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHS--CEEEEEECSCC-S--TTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHhhe--eEEEEEEEecc-C--CcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            4556789999  89999886543 2  23379999999999999999999999999999999875

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.57  E-value=0.023  Score=35.06  Aligned_cols=58  Identities=9%  Similarity=0.165  Sum_probs=45.6

Q ss_pred             CCcceEEEcCCCCCCCHHHHHHHHHhcCCCCeEEEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHCC
Q psy8001          68 SSHCNLYVGNLTWWTTEADMSDAIRSIGVPDFIDVKFFENASNGQSKGFCTVTLGSEESMSLVMERLP  135 (172)
Q Consensus        68 ~~~~~v~V~nL~~~~~~~~l~~~f~~~g~~~~~~~~i~~~~~~g~~~g~afv~f~~~~~a~~al~~l~  135 (172)
                      +.+.-||.-.+|..|...+|.++|+.||.  | .|..+.|-       =|||...+.+.++.++..++
T Consensus        13 p~RdHVf~~tFP~~Wk~~dI~~lFSpfG~--V-~VswIddT-------Sa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          13 PKRDHVLHVTFPKEWKTSDLYQLFSAFGN--I-QISWIDDT-------SAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CCCCSEEEEECCTTCCHHHHHHHHTTTCS--C-CCEEEETT-------EEEEECSCHHHHHHHHHHHH
T ss_pred             CCcceeEEEeCCcccchhHHHHHhcCCCc--e-EEEEecCc-------eEEEEecCHHHHHHHHHHhc
Confidence            34456999999999999999999999992  2 34444442       68999999999998887544